Self Study Report over for Midterm Review of the

Self Study Report over 2004 2006 for Midterm Review of the Graduate School WIAS November 2007 WIAS Midterm Review 2007 Contents Contents Preface .................................................................................................................................... 3 How to read the documentation.............................................................................................. 5 Part A. Graduate school level..................................................................................................... 7 Part B. Documentation of the Chair groups ............................................................................. 24 Animals and Society (AAS) ............................................................................................. 25 Adaptation Physiology (ADP).......................................................................................... 31 Animal Breeding and Genetics (ABG)............................................................................. 47 Animal Nutrition (ANU) .................................................................................................. 71 Animal Production Systems (APS) .................................................................................. 95 Aquaculture and Fisheries (AFI) .................................................................................... 111 Cell Biology and Immunology (CBI)............................................................................. 131 Experimental Zoology (EZO)......................................................................................... 145 Human and Animal Physiology (HAP) .......................................................................... 155 Quantitative Veterinary Epidemiology (QVE)............................................................... 163 Appendix List of Abbreviations.................................................................................. 172 WIAS Midterm Review 2007 Preface Preface In the Dutch national research evaluation system, all publicly funded research is evaluated by a peer review once every six years. The outlines for this evaluation are provided by the Standard Evaluation Protocol (SEP) 2003-2009 developed by VSNU/KNAW/ECOS (2003), adapted for Wageningen University (2003, 2005). Wageningen Institute of Animal Sciences (WIAS) has been evaluated by an international peer review panel according to this protocol in June 2004. The results of the evaluation are intended to assist the research organisation, the management of the research units and the individual researchers to improve future research, research management and policy, the scientific quality of their research and internal and external collaborations. The graduate school generates a ‘self-evaluation report’ once every three years, one in preparation of the external review, and one three years later as a ‘mid-term review’. The present report provides a midterm review for WIAS for 2007. The next external peer review of the graduate school WIAS will take place in 2009. This is one year earlier than required based on the previous peer review in 2004 because of a need for the synchronisation of the peer reviews of the Wageningen Graduate Schools EPS, PE&RC, MGS, VLAG and WIAS. In this midterm evaluation the Chairs and the management of the graduate school evaluate their own performance in relation to the previous peer review. The groups have been asked to report their reaction to the recommendation of the peer review panel. In addition, they have been asked to report the main developments over this period. In the first part of the report, issues are addressed relating to the research and PhD programmes at the level of the graduate school (Part A). In the second part (part B) results of the individual Chairs groups are given. This self-evaluation report will be discussed within the graduate school and qualified by the International Advisory Board (IAB). Finally, the self-evaluation report and the conclusions and recommendations of the IAB will be discussed with chair groups and the Executive Board of Wageningen University. The midterm review will be used to strengthen our international research position and to improve the training and research environment for our PhD students, staff and clients. 4 WIAS Midterm Review 2007 How to read the documentation How to read the documentation The organisation Chair groups form the basis of the University. Each Chair group consists of one full professor, tenured staff, postdocs and PhD students. Ten to twenty Chair groups form a department. Wageningen University has five departments. Wageningen UR also has a contract research organisation consisting of several research institutes. A department and its adjacent research institute together form a ‘Sciences Group’. An example is the Animal Sciences Group with the university part located in Wageningen and the research institute located in Lelystad. Graduate schools and sciences groups form a matrix structure (Fig. 1). For example, most of the staff and PhD students in WIAS reside in the Animal Sciences Group (department and research institute), but also in the Social Sciences Group and in the research institute Imares. Fig. 1: Position of WIAS in Wageningen UR (each ■ represents participation by a chair group) S Plant Sciences Group ↓ Wageningen University Department of Plant Sciences Graduate School WIAS ■ c i e n c e s G r o u p s Social Sciences Group ↓ Department of Social Sciences ■ ■■■■■■■■■■■ ■■■■■■■■■■■ ■■■■■■■■■■■ ■■■■■■■■■■■ ■ ■■■■■■■ ■■■■■■■ Animal Sciences Group ↓ Department of Animal Sciences ■■■■■■■■ ■ ■■■■■■■■ Animal Husbandry Central Veterinary Institute Environmental Sciences Group ↓ Agrotechnology and Food Sciences Group ↓ Other graduate schools ■■■■■■■■ BSc and MSc studies ■■■■■■■■ Contract Research Institutes Plant Research International Alterra A&F LEI Imares Types of PhD students Wageningen University has many PhD students. They can be classified into four categories: 1. Employed PhD students: Unlike in most other countries, the Netherlands has many PhD students that are employed on a four-year contract by the university. These PhD students are often called AIOs or OIOs, which are the old Dutch acronyms for this type of PhD student. 2. Guest PhD students: These PhD students have a fellowship or are employed by a third party while they do all or most of their research within the graduate school. 3. Sandwich PhD students: During the first 6-8 months and the last 6-8 months, these students are in the graduate school, to prepare their research and to finish their thesis, respectively. In between, they carry out their research abroad, often in their home country, and preferably spend brief periods in Wageningen during that period as well. The total time spend at Wageningen University varies between 12 and 24 months. 4. External PhD students: These PhD students combine a job (outside the university) with their PhD research. They visit the graduate school on a regular basis for supervision and courses. 5 WIAS Midterm Review 2007 How to read the documentation Measuring research input and productivity In order to accurately assess research output, we take into account research input (in fte). Unlike most other countries, we take into account research time of PhD students (as far as spent within the graduate school) in our productivity estimates. Obviously, this method of measuring influences productivity figures. In order to provide comparative data we have expressed productivity estimates in two ways: per fte total research input (including time of PhD students spent in Wageningen) and per fte tenured staff. In Part B, Tables 2.1 list the staff, postdocs and PhD students present in each Chair group. Here, the column ‘Fte’ stands for the total size of the individual appointment. Only part of that time is devoted to research because of other obligations such as teaching, management. The other tables, marked ‘research input’, contain the pure research time input as monitored annually. Start and end of appointment Tables 2.1 in Part B list the scientific staff with their start and end of appointment. In the case of PhD students, the end date represents the date of their graduation, not the end of their appointment or fellowship. If no end date is presented, the student is still busy. If the end date is in italics, the student has terminated his/her PhD study. 6 WIAS Midterm Review 2007 Graduate school WIAS Part A. Graduate school level 1 Reflection on the previous assessment After the previous assessment we aimed to maintain the established quality of WIAS’ research and PhD programme, and to improve the points recommended by the peer review committee. The peer review committee’s recommendations and our responses were: a. The lack of connectivity in the matrix management of the Animal Sciences Group should be addressed and rectified. We now have monthly meetings of the WIAS Director and Secretary with the General Director of the Animal Sciences Group (ASG), Prof. Ruud Huirne, where matters of mutual interest are discussed in an open atmosphere. This has proven highly productive. In the annual meetings with the Rector of WU, the ASG Director is present as well. We feel that we have implemented an appropriate solution and have addressed and rectified this recommendation. b. A system of appointment of international post-doctoral workers should be further developed. For each position we aim to appoint the best qualified person available. The University system requires us to first look for a candidate within Wageningen UR. If no suitable candidate is available, we are able to recruit internationally. Currently, we have twenty postdoctoral fellows of which five are from outside the Netherlands. In addition, we have expanded our fellowship programme for visiting scientists (all from abroad) for a stay of up to nine months. In 2007, we have appointed the first Professor from abroad, Prof. Jerry Wells. c. Decisions about the rationalisation and development of the Animal Sciences Group’s facilities should be made and implemented as quickly as possible. The move to the University Campus is planned for 2010. In the meantime, the facilities near the Zodiac building Wageningen are kept up-to-date. d. Research input should be monitored annually to ensure that any developments in the viability of individual Chair groups are promptly addressed. In order to monitor progress and identify new opportunities within the WIAS Chair groups, we have introduced biannual meetings with all Chairs in WIAS at the start of 2005. During these meetings we discuss inflow of PhD students, plans for PhD courses, output and coaching of highpotentials. A summary of the findings is discussed in one of the monthly management meetings of the Chairs of the Department. We have concentrated on monitoring the inflow of PhD students because it constitutes an important indicator for research input and output in the coming years. In 2006, WIAS issued a ‘wake-up call’ to its Chairs because student inflow was relatively low in recent years. The Chairs have increased their efforts to attract PhD students and in 2007 inflow has increased. In 2006, Dr. Bas Rodenburg obtained a Veni grant from NWO to work at the Animal Breeding and Genetics Group, the first in WIAS. Compared to other graduate schools, WIAS should improve in the NWO Veni, Vidi, Vici programme, and this has been recognised. Spotting talent, making long-term plans for CV building and writing of a sound proposal are now on the agenda of Chairs, although day-to-day business still tends to overshadow long-term thinking in a number of groups. Furthermore, the WIAS Director has organised a five-day workshop ‘Writing Winning Grant Proposals’, in 2005, 2006 and 2007. In each workshop, six participants actually wrote a grant proposal and obtained feedback by their fellow participants and the workshop leader. Evaluation of the workshops by participants was highly positive. Finally, intensification of collaboration with ASG Lelystad and Imares (the new marine institute at Wageningen UR, resulting from a merger of RIVO, TNO Marine Research and 7 WIAS Midterm Review 2007 Graduate school WIAS e. f. g. h. i. j. Alterra Texel) has increased critical mass and has led to additional inflow of PhD students. Sub-research-theme objectives should be set for both the school and for the research groups so that there can be some measure of progress against performance targets. After the peer review, we have abandoned the research theme structure. Although the research themes had some function as a platform for discussions, their added value for our research strategy was too low, whereas discussions about ongoing research were taking place independent of the structure. In 2006, the groups within the Department of Animal Sciences have had an intensive discussion on the strategic research agenda. This has resulted in four research themes which are clearly linked to the strategic research themes of Wageningen University: - Animal and health - Product quality and product diversification - Human-animal interactions - Bio-based economy WIAS has played a role in these discussions and has adopted the outcome for its strategic agenda. A very rigorous market evaluation of the funding opportunities for research in non-food animals should be done prior to a substantial shift in research emphasis. WIAS realises the difficulties of entering a relatively new field without conducting a rigorous market evaluation. We are gradually expanding our research profile into non-food animals, for example by investing part of the WIAS strategic funds in PhD projects in that area, because we realise that we first have to build a track record in order to be successful in attracting external funds. In 2005, we attracted a new professor in Animal Nutrition who has a track record and an international network in the pet food sector. In the past years, WIAS attracted a few externally funded projects on non-food animals. WIAS should identify the international leaders in the fields of work in which they want to collaborate and make decisions based on the costs and benefits associated with particular collaborative arrangements. We fully agree with this recommendation. This strategy is used by several Chair groups for their research activities and several were successful in applying for EU programmes in collaboration with other top institutions in Europe. In the field of PhD training, we have identified two organisations (NOVA and ABIES) with which we want to expand our in-depth training programme in an international setting. Some Chair groups should re-examen the financial and personnel resource elements of their ‘business model’. A number of Chair groups have re-examined their business model in response to the high workload of tenured staff and the changes in the WU financial model which moved towards full costs recovery in 2005. Also, some Chairs have increased their number of postdocs, thus creating extra capacity for supervision of PhD students. A new budget model for the University will be implemented in 2008 which is based on full cost recovery for training and research, is more output-based and has a financial incentive for quality. Objectives for senior staff recruitment should be prioritised against the question whether new staff appointments should meet the demands of a certain area of research or meet broader academic considerations. This recommendation has not resulted in action from WIAS. Action in relation to the Ethology group should be taken as quickly as possible. The Ethology group has been discontinued by the University’s Executive Board in 2006. At the moment, there are no perspectives for a new group. This does not mean that WIAS is not actively involved in research and training related to animal welfare. On the contrary, scientists in several Chair groups are actively involved in this area and have established an 8 WIAS Midterm Review 2007 Graduate school WIAS ‘Animal Behaviour & Welfare Platform’. The BSc and MSc training is performed by scientists from ASG in Lelystad. k. The Human and Animal Physiology group needs additional resources and staff changes and merging the group with another Chair group should be considered. In 2006, the Chair group has been associated with the Animal Nutrition group and moved to the Zodiac building where most other WIAS groups are. Unfortunately, the attempt to appoint a new Chair has not been successful. In 2007, the Chair’s profile has been redrafted, a new selection committee has started and we hope that a professor will be appointed in 2008. Meanwhile, the financial status of the group has improved significantly, which offers a sound basis for the new Chair. The staff has continued their ongoing research and has been able to conclude several PhD projects (see also Section B). l. Other recommendations on the level of Chairs are addressed in part B. m. Changes in the PhD programme are described in Chapter 5. Other position and communication changes in the past three years are: n. In February 2004, Prof. Johan van Arendonk took over the position of WIAS Scientific Director. Combining that task (two days a week) with leading the Animal Breeding and Genetics Group proved to be too demanding. In March 2006, Dr. Kor Oldenbroek was appointed as Assistant Director for one day a week. This addition has worked out very well. His focus is on the organisation of in-depth courses, including stakeholder workshops, and on collaboration in PhD courses with European partners. o. A new Chair has been established in WIAS, called Host-microbe interactomics. Selection of candidates took place in 2006. In May 2007, Prof. Jerry Wells, originating from the UK, started on this Chair. He has a strong track record in this field and strengthens WIAS in the field of animal health. p. In 2006, Prof. Peter Groot Koerkamp and his group, which is part of the Chair group Farm Technology, joined WIAS. He focuses on the relation between technology and animal welfare. q. The WIAS Board decided to include representatives of the ASG and the newly created Wageningen UR institute Imares to enhance collaboration between the university groups and these institutes that are actively involved in our domain. Prof. Adriaan Rijnsdorp from Imares became member of the WIAS board. r. In 2005, we started a monthly electronic newsletter to staff, postdocs and PhD students with information on courses (within and outside WIAS), highlights and funding opportunities. This has proven to be an effective way to inform the WIAS community in a timely manner. s. In 2006, WIAS issued a ‘WIAS Update’ in lieu of an Annual Report. We plan to continue this much more accessible and attractive way of reporting. 9 WIAS Midterm Review 2007 Graduate school WIAS 2 Research input Compared to the situation at the previous peer review (1999-2003), total research input in 2004-2006 was lower. Especially the input from AIO/OIOs (employed PhD students) decreased, due to a relatively low inflow in 2003-2006. An analysis conducted in 2006 revealed a decline in especially NWO-funded PhD students and PhD students from ASG Lelystad and Imares. The fact that many new professor were appointed during the last five years has played a role. Also, changing financial rules in the Department of Animal Sciences made Chair groups reluctant to accept new PhD students. From January until October 2007, however, already 27 new PhD students were enrolled. Our ambition is an annual inflow of 2530. For more information on PhD student inflow see Table 5.3 in section 5. Research input from postdocs increased. Table 2.1 Research input in fte by staff, postdocs and PhD students Average 1999-2003 Tenured staff 16.4 16.6 15.6 17.7 Postdocs and other non-tenured staff 10.4 10.3 14.1 9.1 Employed PhD students (AIO/OIOs) 23.5 21.5 22.7 34.1 Other PhD students * 15.5 14.0 13.9 15.1 Total 65.7 62.4 66.3 75.9 * research time of external and sandwich PhD students is counted only when spent in Wageningen 2004 2005 2006 Funding by NWO has been substantially lower compared to the previous period. This can be partly explained by the phasing out of the large NWO/LNV project ‘Limits to animal production and welfare’. In 2006, WIAS has been actively involved in formulating a new NWO/LNV project on animal welfare, which is expected to be launched in the spring of 2008. The limited success of WIAS groups in NWO funding has been recognised as a management issue. Among others, the WIAS Director has organised three 5-day workshops on ‘Writing Winning Grant Proposals’. Table 2.2 Research funding in fte by staff, postdocs and PhD students 2004 University funded NWO funded Contract funded Total 29.5 8.9 27.4 65.7 2005 29.0 7.8 25.6 62.4 2006 28.4 10.5 27.5 66.3 Average 1999-2003 30.5 18.7 26.7 75.9 With regard to funding share (Table 2.3), large differences occur between Chair groups. Adaptation Physiology, Animal Breeding and Genetics, and Cell Biology and Immunology have grown since the previous peer review. The share of Aquaculture and Fisheries, Human and Animal Physiology, and Business Economics has decreased. Our ambition is to have flourishing groups which may differ in size, but have sufficient critical mass. Two very small groups (Animals and Society, and Human and Animal Physiology) are now associated with larger groups to reduce administrative load. Note: Business Economics and Farm Technology also participate in other graduate schools and below only the input in WIAS is shown. 10 WIAS Midterm Review 2007 Graduate school WIAS Table 2.3 Share of funding Average 1999-2003 Adaptation Physiology 14% 15% 14% 7% Animal Breeding and Genetics 16% 17% 24% 19% Animal Nutrition 14% 14% 12% 12% Animal Production Systems 7% 6% 8% 6% Animals and Society 0% 0% 1% Aquaculture and Fisheries 16% 16% 13% 17% Business Economics (only WIAS input) 2% 1% 2% 4% Cell Biology and Immunology 15% 14% 13% 8% Experimental Zoology 6% 6% 6% 7% Farm Technology (only WIAS input) 1% 0% 0% Human and Animal Physiology 5% 4% 1% 3% Quantitative Veterinary Epidemiology 3% 3% 4% 3% Others * 0% 2% 1% 8% Total 100% 100% 100% 100% * Others consist of Ethology (group ended in 2006) and Plant Sciences (contribution ended in 2007). Chair group 2004 2005 2006 11 WIAS Midterm Review 2007 Graduate school WIAS 3 Overview of the results Compared to the situation at the previous peer review (1999-2003), the output has increased. Average output of PhD theses rose from 19 to 24 per year. Average output of refereed journal papers increased from 146 to 178 per year. The full publication listings are reported in the individual Chair reports. Table 3.1 Publication output 2004 PhD theses Academic publications in refereed journals in other journals refereed book chapters non-refereed book chapters monographs edited books proceedings (full papers only) scientific reports total academic publications Professional publications and products (incl. IP) Publications for the general public 22 182 1 8 2 3 0 39 4 239 31 11 2005 27 183 2 12 12 3 0 57 13 282 28 5 2006 24 170 0 15 3 5 0 70 8 271 35 10 Average 1999-2003 19 146 7 8 7 2 1 63 3 238 39 7 Productivity, either measured per fte tenured staff or per fte total input, increased spectacularly compared to the situation at the previous peer review. This reflects the increased awareness among all members of WIAS that scientific output is important. Table 3.2 Number of publications per fte research input Per fte tenured staff Refereed journals Academic publications Per fte total research input Refereed journals Academic publications 2.8 3.6 2.9 4.5 2.6 4.1 1.9 3.1 2004 11.1 14.6 2005 11.0 17.0 2006 10.9 17.4 Average 1999-2003 8.2 13.4 12 WIAS Midterm Review 2007 Graduate school WIAS 4 Academic reputation WIAS periodically assesses the quality of its tenured staff using seven criteria, similar to those used by the other graduate schools in Wageningen University. These criteria are: • • • • • • • Be in possession of a PhD degree Have scored a minimum of 13 publication ‘points’ in refereed journals during the past five years, where a first authorship counts as two points Have acted at least once as a supervisor or co-supervisor of a PhD student during the past five years Have attracted at least one externally-funded PhD or postdoc project during the past five years Have achieved at least an average citation score in the relevant discipline (compared to colleagues in a similar position) Have made a substantial contribution to PhD courses and seminars during the past five years (not necessarily WIAS courses) Have been recognised for scientific achievement (honorary doctorates, scientific awards, membership of editorial boards etc). To be admitted to WIAS, staff must meet at least four of the seven criteria. Senior staff should meet at least six of the seven criteria. If three criteria are met, a member is conditionally admitted for a maximum of three years. We assessed the WIAS staff as part of our KNAW (Royal Netherlands Academy of Sciences) re-accreditation procedure in 1999, and every two or three years since. The results are summarised in Table 4.1. From 1999 onwards, the quality of WIAS staff has steadily improved. Those who were conditionally admitted either left or gained unconditional admittance during the next evaluation. Table 4.1 Admission history of WIAS staff Level of admittance Re-accreditation Midterm 1999 evaluation 2002 Admitted as senior Admitted Conditionally admitted Total number of staff Research capacity 54% 39% 7% 56 21 fte 65% 27% 8% 62 22 fte Re-accreditation 2004 70% 23% 7% 56 20 fte Midterm evaluation 2007 75% 25% 0% 55 18 fte In 2003, we admitted 20 staff members of the ASG in Lelystad and Imares as ‘associated members’, based on the same criteria, and assessed them twice. The number of admitted staff decreased slightly. The percentage of seniors has decreased below 50%. The reorganisation of the ASG in Lelystad was concluded in 2006 and the current policy of the ASG is to increase emphasis on science-based research and on increasing the scientific output. Increased collaboration with WIAS scientists located at the university is recognized by ASG management as an important way to implement that policy. Table 4.2 Admission history of associated members ASG Lelystad and Imares Level of admittance Re-accreditation Admitted in Re-accreditation 1999 2003 2004 Admitted as senior 65% 53% Admitted 25% 42% Conditionally 10% 5% admitted Total number of staff 20 19 Midterm evaluation 2007 47% 47% 6% 17 The list of admitted staff and associated members is in annex A. 13 WIAS Midterm Review 2007 Graduate school WIAS 5 Training and supervision of PhD students The previous peer review committee (2004) and ECOS-KNAW (2005) praised WIAS for its PhD programme. We have maintained the quality and quantity of the courses offered in 20042006. The highlights of the past three years are: a. End of 2004, we adopted the ECTS credit system, in which one credit is 28 hours study load. b. In reply to the remark by the Peer Review Committee that the PhD Students Confidants be more ‘pro-active’, we improved the introduction programme for the new students. Among others, each new student has informal introductory meetings with the WIAS Director and Secretary, the Education Coordinator, and one of the PhD Students Confidants. This has worked out well: knowing ‘the face behind the name’ helps students to overcome their hesitation in approaching these officials. c. The number of courses we offered fluctuated (see Table 5.1): 2004 was an average year, 2005 saw a record high while 2006 saw a low in courses – but 2007 will make up for that. The organisation of in-depth courses was unevenly distributed among WIAS groups. d. In order to improve the long-term planning of courses, Chairs are asked twice a year what plans they have for PhD courses. In 2006, the WIAS PhD Students Council made an inventory of courses that PhD students wanted. That has proved to be a good motivator for potential course organisers. e. In 2003, we started to offer students the possibility to do a ‘midterm job assessment’ with a professional bureau (LTP) in Amsterdam. Despite the very positive evaluation, we stopped this activity in 2005 because of the high costs involved (€ 1800 per student). Wageningen Graduate Schools found an acceptable, and affordable, alternative. f. We started a discussion on competencies that a PhD graduate should have. These competencies are acquired through the Training and Supervision Plan (TSP). Some of these competencies PhD students who already have research experience may be already have. In these cases, waivers are considered. This discussion will be finalised in 2007. g. A new type of PhD course was introduced: ‘Stakeholder meetings’. Centred on a common theme (in the first course: robustness), a group of ten PhD students interviews stakeholders on the desired research agenda for that theme. The students report at a final seminar where the stakeholders and WIAS staff and students are present. The first course was very successful and a second course is planned for the end of 2007. h. Last but not least, WIAS played a role in setting up a research master variant within two MSc studies: Animal Sciences, and Aquaculture and Fisheries. Its goal is to better prepare MSc students for a PhD study. WIAS will be the pilot for WU. The programme has started in September 2007. Table 5.1 Amount of courses and seminars offered in ECTS credits (1 credit = 28 hours) and in days 2004 credits days Courses Seminars 9.4 2.3 33 8 2005 credits days 12.6 2.4 44 8 2006 credits days 6.0 2.0 21 7 Average 1999-2003 credits days 8.7 2.6 30 9 The list of courses and seminars offered per year is in annex B. 14 WIAS Midterm Review 2007 Graduate school WIAS Ambitions for the future are to improve our long-term planning of courses, and to keep an attractive mixture of courses and seminars offered to our national and international PhD students. We are in the process to expand our collaboration with the Nova Universities Network (which offers the ‘Nordic courses’) and France with the aim to have a wider range of high-quality, in-depth courses for our students. Often, specialised courses are only affordable if organised at a European level, which has the added advantage of an mixed international audience. For new courses, focus remains on science-oriented activities, and we aim to improve the career awareness during the PhD study, in both PhD students and their supervisors. A workshop on that subject, held in September 2007, was very successful. The number of PhD graduations increased from 19 in the previous peer review to 24 on average now. The proportion of graduations with an Education Certificate increased as well, from 54% to 67% (Table 5.2.). Table 5.2 Number of PhD graduations with and without Education Certificate 2004 with Certificate without Certificate 15 7 2005 19 8 2006 15 9 Average 1999-2003 10.2 8.6 Inflow of PhD students was low in 2003 and 2004 (Table 5.3). Total inflow increased in 2005 and 2006. This increase is largely due to an increase in sandwich and external PhD students. In order to maintain our high standard of research quality it is important that the number of employed PhD students increases. These students spend most of their research time in WIAS. The change in composition reflects the difficulties in attracting funding for employed PhD students. See also Chapter 2 for further explanation and future prospects. Table 5.3 Indicators of PhD students’ progress 1999 2000 inflow of PhD students per year: - employed PhD students (AIO/OIO) 10 16 - guest and sandwich PhD students 5 8 - external PhD students 1 1 total inflow 16 25 median time to graduation per cohort * 4.8 4.7 2001 8 12 4 24 4.3 2002 9 13 0 22 4.6 2003 11 8 0 19 2004 9 4 3 16 2005 2006 9 10 7 26 10 9 2 21 - percentage of drop-outs ** 6% 0% 4% 0% 5% 12% 4% 5% * time (in years) needed for 50% of a cohort to graduate, external PhD students excluded; also called ‘median time to completion’ ** PhD students left during their PhD study The final success rate of all cohorts (percentage graduated after ten years) is 90%. These performance indicators are significantly better than Wageningen University and national averages, where the median time to graduation is above 5 years and where the final success rates are 85% and 75%, respectively. We aim to maintain our success without loss of quality. 15 WIAS Midterm Review 2007 Graduate school WIAS The WAPS Council The WIAS Associated PhD Students (WAPS) Council aims to act in the interest of WIAS PhD students by active participation in the WIAS Education Committee, the WIAS Board, and the Wageningen PhD Council. The WAPS Council strives for a relevant education programme, contributes to future research plans, and facilitates contacts among WIAS PhD students. We monitor and act upon internal and external developments that might affect WIAS PhD students. Examples of such activities are the inventory of the need for in-depth courses in 2006, organisation of PhD retreats, social get-togethers for PhD students, publication of a year-book of PhD students in 2005, and co-organising the WIAS workshop ‘Career Coaching’ in 2007. The WAPS Council organises the annual WIAS Science Day, in 2006 for the tenth time. After the Science Day, the WIAS International Advisory Board visits WIAS, and among others meets the WAPS Council to discuss WIAS’ PhD programme and the functioning of the WAPS Council. 16 WIAS Midterm Review 2007 Graduate school WIAS 6 Analysis, perspectives and expectations for the graduate school WIAS Strengths • • • • • • • • • • • • • • • • • • • • Productive, motivated and highly qualified staff. Good, up-to-date facilities. Strong national and international position. Well organised and well developed PhD programme. Low number of international tenured staff. Insufficient success in the top quality segment of funding programmes. Limited career opportunities for high potentials. Further expansion of graduate training and PhD students in Europe. Growing interest in welfare, ethics and quality aspects in the animal sector. Aiming for excellence and basic science. Formation of Imares as the Netherlands institute on coast and sea. Changing budget models and tariffs, coupled to comparatively high tariffs. It is difficult to renerate funds to maintain our research facilities up-todate. Declining large-scale animal production in Europe. Strengths and opportunities fit well, but we succeed less well in the top quality segment of funding programmes, which is needed in itself and to compensate for our high tariffs. Top scientists are not always good in finding top funding. We should be more selective and creative in getting full-cost funding. Inflow of international tenured staff should actively be pursued. Steady inflow of PhD students by 25-30 per year. Four in-depth PhD courses per year with European partners. One NWO Veni, Vidi or Vici grant per year (or similar European grant). The tenured staff should be able to focus on long term developments in science, coaching high potentials and funding. The tenured staff should share best practices and could use more assistance in finding funding that covers all costs. Weaknesses Opportunities Threats Analysis Adjusted goals Adjusted strategy • • 17 WIAS Midterm Review 2007 Graduate school WIAS Annex A List of admitted staff and associated members Dept of Animal Sciences Animal Breeding and Genetics Prof.dr.ir. J.A.M. van Arendonk Prof.dr. M.A.M. Groenen Dr.ir. H. Bovenhuis Dr.ir. E. Kanis Dr. J.J. van der Poel Dr.ir. R. Crooymans Prof.dr. M. Smits Dr.ir. J. Komen Dr.ir. P. Bijma Prof.dr. F.W.A. Brom Dr.ir. E.H. van der Waaij Adaptation Physiology Prof.dr.ir. B. Kemp Dr.ir. H. Parmentier Dr.ir. N. Soede Dr.ir. H. van den Brand Dr.ing. W. Hazeleger Animal Nutrition Dr.ir. J. Dijkstra Dr.ir. W. Gerrits Dr.ir. R.P. Kwakkel Dr.ir. A.F.B. van der Poel Prof.dr.ir. B. Urlings Prof.dr.ir. W. Hendriks Prof.dr.ir. L. den Hartog Animal Production Systems Prof.dr.ir. A. van der Zijpp Dr.ir. I.J.M. de Boer Dr.ir. H.M.J. Udo Dr.ir. S. Oosting Animals and Society Prof.dr. E. Stassen Aquaculture and Fisheries Prof.dr. J.A.J. Verreth Dr.ir. L. Nagelkerke Dr.ir. J.W. Schrama Dr. M.C.J. Verdegem 0.30 0.30 0.45 0.25 0.45 0.45 0.10 0.45 0.45 0.10 0.45 senior senior senior Prof.dr. A. Smaal Prof.dr. A.D. Rijnsdorp Cell Biology and Immunology Prof.dr. H. Savelkoul Prof.dr. H. Wichers Dr. J.H.W.M. Rombout Dr. B.M.L. van Kemenade Dr.ir. G.F. Wiegertjes Dr. E.J. Tijhaar Experimental Zoology Prof.dr.ir. J.L. van Leeuwen Dr. M. Muller Dr. F.A. Sibbing Dr.ir. S. Kranenbarg Human and Animal Physiology Dr. V.V.A.M. Schreurs Dr. K. Teerds vacancy Chair Host-pathogen Interactomics Prof.dr. J. Wells 0.10 senior 0.10 senior senior senior senior senior senior 0.30 0.20 0.45 0.25 0.40 0.25 senior senior senior senior senior 0.30 0.45 0.35 0.45 0.45 senior senior senior senior 0.30 senior 0.25 senior 0.40 0.45 0.25 0.45 senior - 0.45 0.35 0.25 0.35 0.10 0.30 0.10 senior senior senior senior senior senior 0.30 senior Quantitative Veterinary Epidemiology Prof.dr.ir. M.C.M. de Jong 0.30 senior Dr.ir. K. Frankena 0.45 senior Dr. E.A.M. Graat 0.25 senior Dept. of Social Sciences Business Economics Prof.dr.ir. R.B.M. Huirne Dr.ir. H. Hogeveen Dr.ir. H. Saatkamp Dr.ir. M. Mourits 0.30 0.25 senior 0.45 senior 0.45 senior 0.10 senior 0.45 senior 0.45 0.45 0.25 senior Dept. of Agrotechnology and Food Sciences Farm Technology Prof.dr.ir. P. Groot Koerkamp 0.30 0.30 senior 0.45 0.45 senior 0.45 senior 18 WIAS Midterm Review 2007 Graduate school WIAS Associated members ASG-IZ Dr. W.J.A. Boersma ASG-VH Dr.ir. J.W. Cone Dr. H. Hopster Dr.ir. A.W. Jongbloed Prof.dr. A. Kijlstra Dr. E. Lambooij Dr. H. Spoolder Dr.ir. A. Aarnink Dr. M.F.W. te Pas Dr.ir. M.H. Pool Dr. J.M.J. Rebel Dr.ir. R.F. Veerkamp Dr.ir. A.M. van Vuuren Dr. J.J. Windig Dr. H. Woelders Imares Dr. S. Kraak Dr. M. Dickey-Collas senior senior senior senior senior senior senior conditional senior 19 WIAS Midterm Review 2007 Graduate school WIAS Annex B List of courses and seminars 2004-2006 2004 event teachers/organisers ects total part. WIAS PhD part. 24-27 Febr. WIAS courses Introduction course 4, 9, 16, 23, 30 March, 1 April afternoons 19-23 April 21-25 June 14-15 Sept. Philosophy of science and ethics Dr. J. Komen Ir. A.T.M. v. Knegsel Ir. M. Bruining Prof. A.J. v.d. Zijpp Dr. H. v.d. Belt 1.5 16 16 1.5 14 14 Vaccination workshop Advances in quantitative genetics RNAi technique and application in viral disease Nutrition and sports (VLAG / WIAS course) 8,9,29,30 Nov. Dr. G.F. Wiegertjes Dr. H. Bovenhuis Prof. B. Muir Dr. J.J. van der Poel Prof. K.A. Schat Dr. M. Prins Dr. V.V.A.M. Schreurs Prof. G.J Schaafsma 1.5 1.5 0.7 26 21 ? ? 7 4 1.4 30 7 29 june- 2 july 22-25 nov. WGS courses (organised by WIAS) Techniques for writing and presenting a scientific paper Techniques for writing and presenting a scientific paper Prof. M. Grossman Prof. M. Grossman 1.2 1.2 24 24 5 2 25 March WIAS seminars Wias Science Day Judith Roelofs Maaike Joerink Han Mulder Samad Amirkolaie Ellen van Eerden Brigitte Ask Basav Hangalapura Hassan Taweel Dr. A.E. Liinamo Dr. N.M. Soede Dr. V.V.A.M. Schreurs Prof. M.W.A. Verstegen Coen Elemans 0.3 100 60 13-14 May PhD Retreat 0.6 38 23 3 June 9 June 7 Oct. 6 Oct. Breeding healthy working dogs Male fertility (NOADD Platform) Dietary Protein: Physiological constraints to nutritive value Educational 'Plus part' to the seminar How do birds sing? 0.15 0.3 0.9 25 50 55 2 ? ? 12 Nov. 0.15 ? ? 20 WIAS Midterm Review 2007 Graduate school WIAS 2005 event teachers/organisers ects total part. WIAS PhD part. 22-25 Febr. 28 Febr.-3 March 8, 15, 22 March, 5, 12, 19 April, afternoons 10-14 April May 21-23 Sept. 10-14 Oct. 17-21 Oct. WIAS courses Introduction course Ecophysiology of the gastrointestinal tract (VLAG / WIAS course) Philosophy of science and ethics Frank Little Prof. M.W.A. Verstegen Prof. G.J. Schaafsma Prof. F.W.A. Brom Dr. H. v.d. Belt Prof. E.N. Stassen Dr. G.F. Wiegertjes Dr. W.J. Koops Prof. M. Grossman Dr. E.H. v.d. Waaij Dr. H. Bovenhuis 1.5 1.4 16 ? 16 11 1.5 14 14 Immunology workshop Job assessments Advanced statistics course: Design of animal experiments The biological basis for improved management and selection tools QTL detection and fine mapping in complex pedigrees 1.4 1.0 1.5 1.5 45 22 21 38 4 5 22 8 6 4-7 Jan. 14-17 June 15-18 Nov. WGS courses (organised by WIAS) Techniques for writing and presenting a scientific paper Techniques for writing and presenting a scientific paper Techniques for writing and presenting a scientific paper Prof. M. Grossman Prof. M. Grossman Prof. M. Grossman 1.2 1.2 1.2 24 24 24 3 3 0 21 WIAS Midterm Review 2007 Graduate school WIAS 2005 event teachers/organisers ects Total part. WIAS PhD part. 17 Febr. WIAS seminars WIAS Science Day 25 Febr. Choices for the Future 9 March 20 April 27 April 23 May 25 May Selection of chickens; an approach to unravel specific and innate immune competence Developments in animal health management Perennial ryegrass for dairy cows Vitality of fish: aspects at organism and system level Risk management in contagious disease control, with applications to Brucellosis Methane emissions in cattle: identification and evaluation of nutritional mitigation options Farewell seminar Prof. Dr. Seerp Tamminga Approaches to sustainable development of animal production Hamburger Disease: the ins and outs of E. coli 0157 Reproduction in dairy cattle; from research to practice Farewell seminar Dr. Willem Schouten Mechanics and development of the musculo-skeletal system Ajay Awati Ariette van Knegsel Han Mulder Ellen Stolte Koen Uitdehaag Dr. H.J.M. Udo Dr. S.J. Oosting M. Thomassen Prof. A.J. van der Zijpp Dr. J.J. van der Poel Dr. H.K. Parmentier Dr. M. Mourits Dr. J. Dijkstra Dr. A. Elgersma Prof. J.A.J. Verreth Dr. H. Saatkamp 0.3 100 60 0.3 80 6 0.15 ? ? ? 0.15 0.3 0.15 ? ? ? ? ? 3 ? ? 24 June Dr. J. Dijkstra 0.15 31 5 8 Sept. 3 Oct. 14 Oct. 21 Oct. 7 Dec. 14 Dec. Dr. J. Dijkstra Dr. I.J.M. de Boer Erwin Mollenhorst Dr. E.A.M. Graat Dr. N.M. Soede Judith Roelofs Dr. J. E. Bolhuis Dr. K. de Greef Prof. J.L. van Leeuwen Talitha v.d. Meulen 0.15 0.15 0.15 0.15 0.15 0.15 ? ? ? ? ? ? ? ? ? ? ? ? 22 WIAS Midterm Review 2007 Graduate school WIAS 2006 event teachers/organisers ects total part. WIAS PhD part. 24-27 Jan. 21, 28 March, 4, 11, 18, 25 April, afternoons 18-22 April 29-30 Sept. WIAS courses Introduction course Philosophy of science and ethics Frank Little Prof. F.W.A. Brom Dr. H. v.d. Belt Prof. E.N. Stassen Dr. G.F. Wiegertjes Maria Forlenza Dr. Henk Hogeveen 1.5 1.5 16 14 16 14 Immunology/Vaccination workshop Mastitis course (GD-Deventer / WIAS course) 1.5 0.5 47 20 3 2 7-10 Febr. 27 Sept.+25 Oct. + indiv. coaching WGS courses (organised by WIAS) Techniques for writing and presenting a scientific paper Personal Efficacy Prof. M. Grossman J. Tummers 1.2 0.5 24 12 2 3 12 Jan. 9 March WIAS seminars Feeding Strategies: Potentials and Constraints for Metabolism WIAS Science Day Dr. V.V.A.M. Schreurs Sander Abrahamse Guido Bosch Esther Ellen Gonçalo Santos Ellen Stolte Paula Uran Prof. J.A.M. v. Arendonk Dr. Roel Veerkamp Dr. W.J.J. Gerrits Dr. H.M.J. Udo Dr. C.H.A.M. Eilers 0.15 0.3 15 100 7 60 29 March How to participate in dynamic sciences Farewel seminar prof. dr. ir. Martin Verstegen Animal Production Systems in Indonesia: interactions of livestock and livelihoods Macrophages and their role in the immune system Dynamics of knowledge management in agricultural R&D (WIAS / PE&RC / Wag.International seminar) Immune response to viruses: a comparable approach Conservation genetics of animal populations (WIAS / PE&RC / PRI / CGN seminar) Nutritional influences on rumen development and glucose metabolism in calves 0.3 120 30 30 March 10 April 0.15 0.15 200 50 10 10 12 Sept. 13 Nov. Dr. G.F. Wiegertjes Maaike Joerink Dr. H.M.J. Udo 0.15 0.15 30 120 6 6 17 Nov. 21 Nov. Prof. H.F. J. Savelkoul Joop Arts Dr. J.K. Oldenbroek Dr. J. Windig 0.15 0.3 30 80 6 9 27 Nov. Dr. W.J.J. Gerrits Dr. J. Dijkstra 0.15 80 6 23 WIAS Midterm Review 2007 Part B. Documentation of the Chair groups 24 WIAS Midterm Review 2007 Animals and Society Animals and Society (AAS) 1 Reflection on the previous assessment The chair of Animals and Society (AAS) was founded in September 2004 and was embedded within the chair group of APS. AAS focuses on the relationship between humans and animals in society. In our society people have different views on the position and value of animals in various animal practices, like keeping animals for food production, recreational purposes and company. AAS aims to increase our understanding of human-animal relationships with the goal to contribute to improvement of welfare of animals. Background Since the 1970s, substantial changes in animal keeping have taken place. On the one hand, developments in the production animal sector are characterized by scale enlargement, increased productivity and increased specialization. A small segment of the production animal sector developed towards a less intensive production system. On the other hand, companion and hobby animals and animals in nature reserves have acquired a more dominant position in Dutch society. Over the years, societal views concerning the role and position of animals have shifted. Nowadays animals are no longer merely valued for their functionality to humans, such as for the production of animal products or for company, and simply treated like commodities, but are considered sentient beings with a value of their own, i.e. their intrinsic value. Consequently, animals should be treated with respect and their health and welfare should be promoted. The various animal practices each have their own specific health and welfare problems. Prevalence of many problems has not decreased, despite the considerable investments in research, technology and information transfer. Claw problems are one example of dominant welfare problems in dairy cattle. These problems are caused by several factors including lack of time, lack of economic incentives, and underestimation of the problems by the keepers. The solution of these problems and many other welfare problems requires a socioethics/economics approach. Role of new chair AAS research aims to contribute to the weighing of interests of different stakeholder groups such as producers, consumers, citizens, and non-governmental organizations with respect to the treatment and attitudes to animals, and the interests of animals in terms of health and welfare. The research is interdisciplinary in nature. The research project ‘New foundations for the prevention and control of notifiable animal diseases’ which started in 2005, may serve as an example of the AAS approach. The project is a joint activity of AAS, the chair of Life Sciences Ethics (WUR) and the chair of Epidemiology of Infectious Diseases of the Department of Farm Animal Health (UU). This NWO funded project aims to develop new foundations for prevention and control systems of notifiable diseases, like avian influenza and foot and mouth disease, which are justifiable in the public domain. The project takes place in the light of four recent developments: i.e. the broadened spectrum of stakeholders, progress in veterinary sciences, the shift in views on human-animal relationships and the complex role of governments in this respect. This research project is conducted by a PhD student who follows an interdisciplinary approach with an ethical emphasis, supported by disciplinary research by post-docs in the field of ethics, epidemiology and sociology. The AAS chair is embedded in the department of Animal Sciences. This is important because knowledge of different animal practices and animal welfare and health constitutes the 25 WIAS Midterm Review 2007 Animals and Society foundation of the research. This way, the chair contributes to improved welfare of animals and humans through the study of the fundamental views and attitudes of humans to animals. In the starting-up period there has been invested in the collaboration with different groups in and outside WUR and in that way will increase opportunities for fund raising and increase research capacity in the future. Collaboration has been found with the following groups: WUR partners: Animal Breeding Genetics, Animal Production Systems, Quantitative Veterinary Epidemiology, Business Economics, Agro Business Technology, LEI, applied philosophy and with Partners outside WUR: Faculty of Veterinary Sciences Utrecht University, Foulum Agricultural School Denmark. 2 Research input As the tenured staff is limited, the focus is on collaboration with other groups at the Wageningen University and other universities (mainly veterinary Faculty, UU). Through collaboration we get access to knowledge and expertise in biomedical disciplines like epidemiology, welfare, economics and social-ethical disciplines. Possible sources of research funding are NWO, university and the Ministry of Agriculture, Nature and Food Safety. In November 2005 an interdisciplinary research project was funded by the NWO program Ethics, Research and Policy. In collaboration with other researchers new research projects have been worked out and will start in 2008, including 1 PhD project and postdoc projects. The PhD project ‘improvement of welfare of dairy cattle by socio-economic input on claw health’ (start in 2008) is a collaboration with Department of Farm Animal Health (UU). Also new initiatives for research projects for the coming years are being worked out. Table 2.1 Research staff Name and present title Period of appointment Fte* Start End Full professors Prof. dr. E.N. Stassen Sep 2004 0.6 Employed PhD students Drs. N. Cohen Nov 2004 Nov 2005 0.8 Nov 2005 1.0 * fte regards the total appointment; tenured staff has approximately 40% available for research Table 2.2 Research input in fte by staff, post docs and PhD students 2004 2005 2006 Tenured staff 0.2 0.2 0.2 Post-docs and other non-tenured staff 0.0 0.0 0.0 AIO/OIOs 0.0 0.1 0.8 Other PhD students * 0.0 0.0 0.0 Total 0.2 0.3 1.0 * research time of external and sandwich PhD students is counted only when spent in Wageningen Table 2.3 Research funding in fte by staff, post docs and PhD students 2004 2005 University funded 0.2 0.2 NWO funded 0.0 0.1 Contract funded 0.0 0.0 Total 0.2 0.3 2006 0.2 0.8 0.0 1.0 26 WIAS Midterm Review 2007 Animals and Society 3 Overview of the results In spite of the transition period of prof dr E.N. Stassen from Utrecht University to Wageningen University and the foundation of the chair of AAS the production output has continued as appears from the publication output. Table 3.1 Publication output PhD theses Academic publications 2004 2 4 1 5 var 2005 4 4 var 2006 1 1 1 1 var in refereed journals in other journals book chapters monographs and edited books proceedings (full papers only) scientific reports total academic publications Professional publications and products Publications for the general public Table 3.2 Number of publications per fte research input Per fte tenured staff Refereed journals Academic publications Per fte total research input Refereed journals Academic publications 2004 20.0 25.0 20.0 25.0 2005 20.0 20.0 13.3 13.3 2006 0.0 5.0 0.0 1.0 27 WIAS Midterm Review 2007 Animals and Society 4 Analysis, perspectives and expectations of the Chair group • • Strengths Interdisciplinary approach (β and γ disciplines, see above) Expertise in animal production systems and animal health and welfare Weaknesses • • • • Limited staff capacity Limited fundraising capacity Opportunities Need for better understanding of changing societal views on animals Collaboration with other groups within ASG and other departments of WUR Threats • • • • • • Funding sources limited to the public domain Analysis Focus on human-animal relationships, in particular the relationships of people with kept animals Contribution to policy with respect to treatment and keeping of animals Contribution to improvement of animal welfare Collaboration with other research groups is important Goals Contributing to the weighing of interests of different stakeholder groups in relation to the treatment of and attitudes to animals and the interest of animals in terms of health and welfare Strategy • • • Attract PhDs and postdocs for research in the field of human animal relationships. The goal is to have 2 postdocs and 2 PhD students working for AAS in this field on a yearly basis. Funding through public sources (NWO, University, Ministry LNV) Joined interdisciplinary programs and collaboration with groups in and outside Wageningen University. 28 WIAS Midterm Review 2007 Animals and Society Annex List of publications 2004-2006 PhD theses Somers, J.G.C.J. (2004) Claw disorders and disturbed locomotion in dairy cows: the effect of floor systems and implications for animal welfare Utrecht University, Faculty of Veterinary Medicine. Promotor(en): Noordhuizen-Stassen, Prof Dr E.N.; Metz, Prof.dr.ir. J.H.M., co-promotor(en): Frankena, Dr ir K.; Schouten, W.G.P.. - Enschede : Printpartners Ipskam, p. 143. Van der Tol, P.P.J. (2004) Biomechanical aspects of claw-floor interaction in dairy cattle. Implications for locomotion and claw disorders. Utrecht University, Faculty of Veterinary Medicine. Promotor (en): Weijs, prof dr W.A. , Metz prof dr ir J.H.M. and Noordhuizen-Stassen prof dr E.N., co-promotor: Braam, dr ir C.R. Holzhauer, M. (2006) Claw health in dairy cows in the Netherlands: epidemiological aspects of different claw disorders in dairy cattle in the Netherlands. Utrecht University, Faculty of Veterinary Medicine. Promators: Stegeman, prof dr J.A. and Stassen prodr E.N. co-promotors: van Schaik, dr ir G. and Verhoef, dr J. Lochem: Lochemdruk bv – p. 222. Scientific articles in refereed journals Beerda, B.; Kornalijnslijper, J.E.; Werf, J.T.N. van der; Noordhuizen-Stassen, E.N.; Hopster, H. (2004) Effects of milk production capacity and metabolic status on HPA function in early postpartum dairy cows Journal of Dairy Science 87 (7). - p. 2094 - 2102. Holzhauer, M.; Middelesch, H.; Bartels, C.J.; Frankena, K.; Verhoeff, J.; Noordhuizen-Stassen, E.N.; Noordhuizen, J.P. (2005) Assessing the repeatability and reproducibility of the Leg Score: a Dutch Claw Health Scoring System for dairy cattle Tijdschrift voor Diergeneeskunde 130 (14-15). - p. 440 - 443. Kornalijnslijper, J.E.; Daemen, A.; Werven, T. van; Niewold, T.A.; Rutten, V.; Noordhuizen-Stassen, E.N. (2004) Bacterial growth during the early phase of infection determines the severity of experimental Escherichia coli mastitis in dairy cows Veterinary Microbiology 101 . - p. 177 - 186. Somers, J.G.C.J.; Schouten, W.G.P.; Frankena, K.; Noordhuizen-Stassen, E.N.; Metz, J.H.M. (2005) Development of Claw Traits and Claw Lesions in Dairy Cows kept on different floor systems Journal of Dairy Science 88 . - p. 110 - 120. Somers, J.G.C.J.; Frankena, K.; Noordhuizen-Stassen, E.N.; Metz, J.H.M. (2005) Risk factors for digital dermatitis in dairy cows kept in cubicle houses in The Netherlands Preventive Veterinary Medicine 71 (1-2). - p. 11 - 21. Somers, J.G.C.J.; Frankena, K.; Noordhuizen-Stassen, E.N.; Metz, J.H.M. (2005) Risk factors for interdigital dermatitis and heel erosion in dairy cows kept in cubicle houses in The Netherlands Preventive Veterinary Medicine 71 (1-2). - p. 23 - 34. Tol, P.P.J. van der; Metz, J.H.M.; Noordhuizen-Stassen, E.N.; Back, W.; Braam, C.R. (2004) Frictional Forces Required for unrestrained locomotion in dairy cattle Journal of Dairy Science 88 (2). - p. 615 - 624. 29 WIAS Midterm Review 2007 Animals and Society Tol, P.P.J. van der; Beek, S.S. van der; Metz, J.H.M.; Noordhuizen-Stassen, E.N.; Back, E.; Braam, C.R.; Weijs, W.A. (2004) The effect of preventive trimming on weight bearing and force balance on the claws of dairy cattle Journal of Dairy Science 87 (6). - p. 1732 - 1738. Proceedings (Full papers only) Tol, P.P.J. van der; Metz, J.H.M.; Noordhuizen-Stassen, E.N.; Back, W.; Braam, C.R.; Weijs, W.A. (2004) The Force and Pressure Distribution on the Claws of Cattle and the Biomechanical effect of Preventive Trimming In: Proceedings of the 13th International Symposium and 5th Coonference on Lameness in Ruminants, Maribor, Slovenija, 11-15 February 2004, - p. 62 - 64. Professional publications and products (incl. patents) Bierma, M.P.R.; Frankena, K.; Hogeveen, H.; Metz, J.H.M.; Stassen, E.N. (2006) Beslissingsondersteunende studie voor de aanpak van kreupelheid en klauwaandoeningen op melkveebedrijven Wageningen : Wageningen Universiteit, - p. 102. 30 WIAS Midterm Review 2007 Adaptation Physiology Adaptation Physiology (ADP) 1 Reflection on the previous assessment The mission of the chair group is to increase our understanding and to unravel determinants of adaptive capacity of animals. In the 2004 review it was stated that group members should be aware of working separately in their respective disciplines, rather than towards the common goal of whole animal physiology and adaptation. Moreover, maintaining the sharp and integrated focus of the research requires a clear strategy that all members of the group can accept and adopt. Since the peer review in 2004, the group has substantially sharpened its focus in the field of adaptation physiology and this focus has been adopted by all group members. The focus of the group is on three factors that determine the adaptive capacity of animals: (1) genetic predisposition; (2) ontogeny or early life conditions; and (3) characteristics of the current environment that facilitate (resources) or hamper (constraints) the expression of adaptive responses. All the current and new research projects deal with one or more of these three underlying factors (main focus at this moment on field 2 and 3). (1) The influence of genetic predisposition on adaptive capacity has been studied in the past using laying hen lines selected for skewed specific immune reactivity. Currently, several projects (including 2 PhD projects) are carried out in collaboration with the Animal Breeding and Genetics (ABG) group and the Animal Sciences Group (ASG) in Lelystad that study how and why adaptive capacity differs between genetic chicken lines. (2) During the past three years a substantial amount of research effort has been driven towards the influence of early life conditions on adaptive capacity. Effects of prenatal and early postnatal programming are studied in several research projects in chickens (1 post doc and 5 PhD projects are running) and pigs (2 post doc and 2 PhD projects running). In 2007, the group has, in collaboration with the ABG group, invested in a 2-year postdoc project aimed at studying epigenetic programming, which is carried out in collaboration with Leiden University to strengthen fundamental insight in early programming. (3) Concerning the effects of environmental resources or constraints on adaptive processes, we are studying trade-offs between (re)production, immune competence and energy partitioning in pigs and cattle (3 running PhD projects) and in chickens differing in residual feed intake or subjected to cold and heat stress (2 finished PhD projects). We have recently started a project to study effects of long term exposure to air-born bacterial products on T-cell skewing in poultry and their role in maturation of mucosal and systemic immunity. In the peer review 2004 it was also stated that it is important that the group does not fall back into traditional animal production research and our mission was of high scientific and societal relevance. Farm animals are excellent models for studying determinants of adaptive capacity as they are constantly challenged to perform under constraining or changing conditions, with consequences for their welfare and health. The industrial and societal interest in this work is high, which results in a substantial increase in funding of research projects (particularly PhD students) and increased output in terms of publications. Therefore our move away from traditional animal production research has been successful. Furthermore, there is a growing interest for MSc students to study non-food animals. As a first step to extend our focus to non-food animals, the group has started to study effects of interspecific (human-animal) 31 WIAS Midterm Review 2007 Adaptation Physiology bonding on later stress reactivity and adaptive capacity using the pig as a model for companion animals. In addition, the coming years we want to strengthen our collaboration with groups working on pets. Techniques have developed during the past years to monitor the serotonergic system of dogs, pigs and poultry peripherally in thrombocytes. A multifactorial approach is vital to unravel determinants of adaptive capacity. The group is aware of the fact that it cannot accommodate expertise and techniques on all relevant disciplines. Therefore, the group continues to collaborate with many other groups within and outside Wageningen University, which is reflected in the high proportion of refereed published papers that is written with co-authors from other groups (app. 80%). 2 Research input Main disciplinary skills of the group members are immunology, energy partitioning and reproductive biology. Since 2004 new researchers have been attracted that bring in other disciplines, such as ethology and microbiology. Thus we aim to further strengthen our interdisciplinary approach. Also the input of our 0.0 Professor Decuypere from the University of Leuven is a successful addition to our group in the field of endocrinology of energy metabolism and reproduction. The type of PhD students we wish to attract has changed during the last years. We have now attracted more students with a biological background in stead of the classical animal science MSc. Table 2.1 Research staff Name and present title Period of appointment Fte* Coll. Start End Full professors Prof.dr. B. Kemp Jan 2000 1.0 Prof.dr. M.P. Decuypere Apr 2004 Apr 2009 0.0 Associate professors Dr. N.M. Soede Mar 1992 1.0 Assistant professor Dr. H. van den Brand Aug 2001 1.0 Dr. W. Hazeleger Feb 1974 1.0 Dr. H. Parmentier Apr 1991 1.0 Other tenured staff Dr. A. Lammers Jul 2000 1.0 Non-tenured staff Dr. L. Bolhuis Feb 2004 Jan 2007 1.0 Dr. J. de Groot Mar 2006 Feb 2007 0.5 Dr. P. Langendijk Jan 2003 Jan 2007 1.0 Employed PhD students Ir. M. Siwek Jul 2000 Mar 2005 1.0 ABG Ir. J.B. Roelofs Sep 2001 Oct 2005 1.0 Ir. B. Hangalapura Nagarajappa Mar 2002 Mar 2006 1.0 Ir. E. van Eerden Sep 2002 Feb 2007 1.0 QVE Ir. A.T.M. Knegsel Jan 2003 Oct 2007 1.0 ANU Ir. R. Gerritsen Dec 2003 1.0 Ir. K.A. Uitdehaag Apr 2004 1.0 ABG Ir. L.S. Star May 2004 1.0 ABG Guest PhD students Ir. R. Molenaar Oct 2005 1.0 Ir. I. Reijrink Oct 2005 1.0 Ir. L.L. Hoving Sep 2006 1.0 Sandwich PhD students Drs. T.T.T. Huynh Jun 2001 Mar 2005 1.0 ANU External PhD students Ir. C.M.C. van der Peet-Schwering Jan 1999 Jun 2004 1.0 ANU Ir. A. Lourens Sep 2001 1.0 Ir. H. Leruste Sep 2005 1.0 Ir. J.J. Zonderland Nov 2005 1.0 * fte regards the total appointment; tenured staff has approximately 40% available for research 32 WIAS Midterm Review 2007 Adaptation Physiology To strengthen our multidisciplinary work we hired extra postdocs in other disciplines than our traditional fields. Furthermore we try to stimulate good PhD students to write grant proposals for there own position and additional PhD’s. Therefore, total research input and research funding has increased. Table 2.2 Research input in fte by staff, postdocs and PhD students Average 1999-2003 Tenured staff 1.7 1.9 1.7 1.7 Postdocs and other non-tenured staff 2.5 2.7 3.2 0.8 AIO/OIOs 5.0 4.3 3.2 3.0 Other PhD students * 0.0 0.5 1.5 0.1 Total 9.2 9.4 9.5 5.6 * research time of external and sandwich PhD students is counted only when spent in Wageningen 2004 2005 2006 Table 2.3 Research funding in fte by staff, postdocs and PhD students 2004 University funded NWO funded Contract funded Total 5.0 1.1 3.1 9.2 2005 5.8 0.0 3.9 9.4 2006 4.7 0.0 4.8 9.5 Average 1999-2003 2.8 1.2 1.5 5.6 3 Overview of the results Because our aim is to increase our scores for scientific quality and productivity in the previous review, we aimed to increase our publication record and scientific quality of the papers. Average number of publications has successfully increased in the last years. Papers in the previous review were mostly published in journals like Journal of Animal Science, Poultry Science and Theriogenology. Impacts factors of these journals range from 1 to 2. Compared to the previous review, we increased our percentage of papers to journals with an impact factor above 2 from 8 to 27.4%. We expect further increase in productivity the following period because of a substantial increase in PhD students which is further increased in 2007. Table 3.1 Publication output 2004 2005 2006 PhD theses Academic publications 2 in refereed journals 32 0 0 0 0 0 6 1 39 5 0 3 25 1 1 0 0 0 5 0 32 3 0 1 27 0 1 0 0 0 7 2 37 2 0 Average 1999-2003 1.6 18.4 1.8 3.2 0.2 0.2 0.2 5.6 0.2 29.4 4.2 0 in other journals refereed book chapters non-refereed book chapters monographs edited books and special issues proceedings (full papers only) scientific reports Total academic publications Professional publications and products (incl. IP) Publications for the general public 33 WIAS Midterm Review 2007 Adaptation Physiology Table 3.2 Number of publications per fte research input Per fte tenured staff Refereed journals Academic publications Per fte total research input Refereed journals Academic publications 3.5 4.3 2.7 3.4 2.9 3.9 3.3 5.3 2004 2005 2006 18.8 22.9 13.5 17.3 15.9 21.8 Average 1999-2003 10.8 17.3 4 Analysis, perspectives and expectations of the Chair group Strengths • Multidisciplinary group with strong focus on adaptation • Good funding from industry and WUR programs • Strong national cooperation and increasing international cooperation and with the ADG division in Lelystad • Group is becoming (inter)nationally established • Low number of projects funded by NWO. Efforts have been made to get projects funded but competition is very strong and divers. Basic physiological studies do not rate very high in the programmes. • New NWO program ‘waardering voor welzijn’ with more focus on animal research increase chances for funding • Increasing interest in adaptive capacity, welfare and robustness of animals in breeding and in society • Increasing interest in non-food animals • Decreasing input in animal production in the Netherlands • Increasing costs of infrastructure for research in general and in particular for animal experiments Weaknesses Opportunities Threats 34 WIAS Midterm Review 2007 Adaptation Physiology Annex List of publications 2004-2006 PhD Theses Bokkers, E.A.M. (2004) Behavioural motivations and abilities in broilers Wageningen Universiteit. Promotor(en): Kemp, Prof dr ir B., co-promotor(en): Koene, Dr P.. - Wageningen, The Netherlands : Ponsen & Looijen, - p. 155. Hangalapura, B.N. (2006) Cold stress and immunity: Do chickens adapt to cold by trading-off immunity for thermoregulation? WUR Wageningen UR. Promotor(en): Kemp, Prof dr ir B., co-promotor(en): Parmentier, Dr ir H.K.; Brand, Dr ir H. van den. - s.n. : s.n., - p. 160. Huynh Thi Thanh Thuy, -- (2005) Heat stress in growing pigs WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A.; Kemp, Prof dr ir B., co-promotor(en): Aarnink, Dr.ir. A.J.A.. Peet-Schwering, C.M.C. van der (2004) Long-term performance and behavior of sows fed high levels of non-starch polysaccharides WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A.; Kemp, Prof dr ir B., co-promotor(en): Hartog, Prof.dr.ir. L.A. den. - [S.I.] : [s.n.], - p. 141. Roelofs, J.B. (2005) When to inseminate the cow? Insemination, ovulation and fertilization in dairy cattle WUR Wageningen UR. Promotor(en): Kemp, Prof dr ir B., co-promotor(en): Soede, Dr ir N.M.; Eerdenburg, F.J.C.M. van. - Wageningen, The Netherlands : Wageningen University, - p. 152. Siwek, M.Z. (2005) Different genetic bases of immune responses in laying hens WUR Wageningen UR. Promotor(en): Arendonk, Prof dr ir J.A.M. van, co-promotor(en): Poel, Dr J.J. van der; Parmentier, Dr ir H.K.. - [S.l.] : [s.n.], - p. 153. Scientific articles in refereed journals Aarnink, A.J.A.; Schrama, J.W.; Heetkamp, M.J.W.; Stefanowska, J.; Huynh, T.T.T. (2006) Temperature and body weight affect fouling of pig pens Journal of Animal Science 84 . - p. 2224 - 2231. Adewuyi, A.A.; Roelofs, J.B.; Gruys, E.; Toussaint, M.J.M.; Eerdenburg, F.J.C.M. van (2006) Relationship of Plasma Nonesterified Fatty Acids and Walking Activity in Postpartum Dairy Cows Journal of Dairy Science 89 (8). - p. 2977 - 2979. Baarendse, P.J.J.; Kemp, B.; Brand, H. van den (2006) Early-age housing temperature affects subsequent broiler chicken performance British Poultry Science 47 (2). - p. 125 - 130. Baelmans, R.; Parmentier, H.K.; Udo, H.M.J.; Dorny, P.; Demey, F.; Berkvens, D. (2004) Different Serum Haemolytic Complement Levels in Indigenous Chickens from Benin, Bolivia, Cameroon, India and Tanzania Tropical Animal Health and Production 36 (8). - p. 731 - 742. Baelmans, R.; Parmentier, H.K.; Nieuwland, M.G.B.; Dorny, P.; Demey, F. (2005) Serological Screening for MHC (B)-Polymorphism in Indigenous Chickens Tropical Animal Health and Production 37 (2). - p. 93 - 102. 35 WIAS Midterm Review 2007 Adaptation Physiology Baelmans, R.; Parmentier, H.K.; Nieuwland, M.G.B.; Dorny, P.; Demey, F.; Berkvens, D. (2005) Haemolytic Complement Activity and Humoral Immune Responses to Sheep Red Blood Cells in Indigenous Chickens and in Eight German Dahlem Red Chicken Lines with Different Combinations of Major Genes (dwarf, naked neck and frizzled) of Tropical Interest Tropical Animal Health and Production 37 (3). - p. 173 - 186. Baelmans, R.; Parmentier, H.K.; Dorny, P.; Demey, F.; Berkvens, D. (2006) Reciprocal Antibody and Complement Responses of Two Chicken Breeds to Vaccine Strains of Newcastle Disease Virus, Infectious Bursal Disease Virus and Infectious Bronchitis Virus Veterinary Research Communications 30 (5). - p. 567 - 576. Bolhuis, J.E.; Schouten, W.G.P.; Leeuw, J.A. de; Schrama, J.W.; Wiegant, V.M. (2004) Individual coping characteristics, rearing conditions and behavioural flexibility in pigs Behavioural Brain Research 152 . - p. 351 - 360. Bolhuis, J.E.; Schouten, W.G.P.; Schrama, J.W.; Wiegant, V.M. (2005) Individual coping characteristics, aggressiveness and fighting strategies in pigs Animal Behaviour 69 (5). - p. 1085 - 1091. Bolhuis, J.E.; Schouten, W.G.P.; Schrama, J.W.; Wiegant, V.M. (2005) Behavioural development of pigs with different coping characteristics in barren and substrate-enriched housing conditions Applied Animal Behaviour Science 93 (3-4). - p. 213 - 228. Bolhuis, J.E.; Schouten, W.G.P.; Schrama, J.W.; Wiegant, V.M. (2006) Effects of rearing and housing environment on behaviour and performance of pigs with different coping characteristics Applied Animal Behaviour Science 101 (1-2). - p. 68 - 85. Brand, H. van den; Parmentier, H.K.; Kemp, B. (2004) Effects of housing system (outdoor vs cages) and age of laying hens on egg characteristics British Poultry Science 45 (6). - p. 745 - 752. Brand, H. van den; Parmentier, H.K.; Kemp, B. (2004) Selection for antibody response against sheep red blood cells and layer age affect egg quality British Poultry Science 45 (6). - p. 787 - 792. Brand, H. van den; Schouten, W.G.P.; Kemp, B. (2004) Maternal feed intake, but not feed composition affects postural behaviour and nursing frequency of lactating primiparous sows Applied Animal Behaviour Science 86 (1-2). - p. 41 - 49. Brand, H. van den; Soede, N.M.; Kemp, B. (2006) Supplementation of dextrose to the diet during the weaning to estrus interval affects subsequent variation in within-litter piglet birth weight Animal Reproduction Science 91 (3-4). - p. 353 - 358. Buitenhuis, A.J.; Rodenburg, T.B.; Siwek, M.Z.; Cornelissen, S.J.B.; Nieuwland, M.G.B.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Koene, P.; Bovenhuis, H.; Poel, J.J. van der (2004) Identification of QLTs involved in open-field behavior in young and ad laying hens Behavior Genetics 34 (3). - p. 325 - 333. Buitenhuis, A.J.; Rodenburg, T.B.; Siwek, M.Z.; Cornelissen, S.J.B.; Nieuwland, M.G.B.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Koene, P.; Bovenhuis, H.; Poel, J.J. van der (2005) Quantitative trait loci for behavioural traits in chicken Livestock Production Science 93 (1). - p. 95 - 103. 36 WIAS Midterm Review 2007 Adaptation Physiology Cotter, P.F.; Ayoub, J.; Parmentier, H.K. (2005) Directional Selection for Specific Sheep Cell Antibody Responses Affects Natural Rabbit Agglutinins of Chickens Poultry Science 84 (2). - p. 220 - 225. Cotter, P.F.; Eerden, E. van (2006) Natural Anti-Gal and Salmonella-Specific Antibodies in Bile and Plasma of Hens Differing in Diet Efficiency Poultry Science 85 (3). - p. 435 - 440. Cotter, P.F.; Eerden, E. van (2006) Salmonella Challenge Affects the Antibody Isotype Profile of Bile in Hens Differing in Metabolic Efficiency Poultry Science 85 (5). - p. 861 - 865. Dorny, P.; Baelmans, R.; Parmentier, H.K.; Nieuwland, M.G.B.; Demey, F.; Berkvens, D. (2005) Serum Haemolytic Complement Levels in German Dahlem Red Chickens Are Affected by Three Major Genes (Naked, Neck, Dwarf, Frizzled) of Tropical Interest Tropical Animal Health and Production 37 (1). - p. 1 - 9. Ducro-Steverink, D.W.B.; Peters, C.G.W.; Maters, C.C.; Hazeleger, W.; Merks, J.W.M. (2004) Reproduction results and offspring performance after non-surgical embryo transfer in pigs Theriogenology 62 (3-4). - p. 522 - 531. Eerden, E. van; Brand, H. van den; Parmentier, H.K.; Jong, M.C.M. de; Kemp, B. (2004) Phenotypic Selection for Residual Feed Intake and Its Effect on Humoral Immune Responses in Growing Layer Hens Poultry Science 83 (9). - p. 1602 - 1609. Eerden, E. van; Brand, H. van den; Vries Reilingh, G. de; Parmentier, H.K.; Jong, M.C.M. de; Kemp, B. (2004) Residual Feed Intake and its Effect on Salmonella enteritidis Infection in Growing Layer Hens Poultry Science 83 . - p. 1904 - 1910. Eerden, E. van; Brand, H. van den; Heetkamp, M.J.W.; Decuypere, E.; Kemp, B. (2006) Energy Partitioning and Thyroid Hormone Levels During Salmonella enteritidis Infections in Pullets with High or Low Residual Feed Intake Poultry Science 85 (10). - p. 1775 - 1783. Gerritsen, R.; Langendijk, P.; Soede, N.M.; Kemp, B. (2005) Effects of (artificial) boar stimuli on uterine activity in estrous sows Theriogenology 64 (7). - p. 1518 - 1525. Gerritsen, R.; Langendijk, P.; Soede, N.M.; Kemp, B. (2005) Effects of artificial boar stimuli on the expression of oestrus in sows Applied Animal Behaviour Science 92 (1-2). - p. 37 - 43. Geverink, N.A.; Parmentier, H.K.; Vries Reilingh, G. de; Schouten, W.G.P.; Gort, G.; Wiegant, V.M. (2004) Effect of response to backtest and housing condition on cell-mediated and humoral immunity in adult pigs Physiology and Behavior 80 (4). - p. 541 - 546. Geverink, N.A.; Heetkamp, M.J.W.; Schouten, W.G.P.; Wiegant, V.M.; Schrama, J.W. (2004) Backtest type and housing condition of pigs influence energy metabolism Journal of Animal Science 82 (4). - p. 1227 - 1233. Groot, J. de; Kruijt, L.; Scholten, J.W.; Boersma, W.J.A.; Buist, W.G.; Engel, B.; Reenen, C.G. van (2005) Age, gender and litter-related variation in T-lymphocyte cytokine production in young pigs Immunology 115 (4). - p. 495 - 505. 37 WIAS Midterm Review 2007 Adaptation Physiology Guo, F.C.; Kwakkel, R.P.; Williams, B.A.; Parmentier, H.K.; Li, W.K.; Yang, Z.Q.; Verstegen, M.W.A. (2004) Effects of Mushroom and Herb Polysaccharides on Cellular and Humoral Immune Responses of Eimeria tenellaInfected Chickens Poultry Science 83 (7). - p. 1124 - 1132. Hangalapura, B.N.; Nieuwland, M.G.B.; Buyse, J.; Kemp, B.; Parmentier, H.K. (2004) Effect of Duration of Cold Stress on Plasma Adrenal and Thyroid Hormone Levels and Immune Responses in Chicken Lines Divergently Selected for Antibody Responses Poultry Science 83 (10). - p. 1644 - 1649. Hangalapura, B.N.; Nieuwland, M.G.B.; Vries Reilingh, G. de; Brand, H. van den; Kemp, B.; Parmentier, H.K. (2004) Durations of cold stress modulates overall immunity of chicken lines divergently selected for antibody responses Poultry Science 83 (5). - p. 765 - 775. Hangalapura, B.N.; Nieuwland, M.G.B.; Vries Reilingh, G. de; Buyse, J.; Brand, H. van den; Kemp, B.; Parmentier, H.K. (2005) Severe Feed Restriction Enhances Innate Immunity But Suppresses Cellular Immunity in Chicken Lines Divergently Selected for Antibody Responses Poultry Science 84 . - p. 1520 - 1529. Hangalapura, B.N.; Kaiser, M.G.; Poel, J.J. van der; Parmentier, H.K.; Lamont, S.J. (2006) Cold stress equally enhances in vivo pro-inflammatory cytokine gene expression in chicken lines divergently selected for antibody responses Developmental and Comparative Immunology 30 (5). - p. 503 - 511. Harkema, W.; Visser, I.; Soede, N.M.; Kemp, B.; Woelders, H. (2004) Capacity of boar spermatozoa to bind zona pellucida proteins in vitro in relation to fertilization rates in vivo Theriogenology 61 (3). - p. 227 - 238. Hazeleger, W.; Soede, N.M.; Kemp, B. (2005) The effect of feeding strategy during the pre-follicular phase on subsequent follicular development in the pig Domestic Animal Endocrinology 29 (2). - p. 362 - 370. Huynh Thi Thanh Thuy, --; Aarnink, A.J.A.; Spoolder, H.A.M.; Verstegen, M.W.A.; Kemp, B. (2004) Effects of floor cooling during high ambient temperatures on the lying behavior and productivity of growing finishing pigs Transactions of the ASAE 47 (5). - p. 1773 - 1782. Huynh Thi Thanh Thuy, --; Aarnink, A.J.A.; Gerrits, W.J.J.; Heetkamp, M.J.W.; Canh, T.T.; Spoolder, H.A.M.; Kemp, B.; Verstegen, M.W.A. (2005) Thermal behaviour of growing pigs in response to high temperature and humidity Applied Animal Behaviour Science 91 (1-2). - p. 1 - 16. Huynh Thi Thanh Thuy, --; Aarnink, A.J.A.; Verstegen, M.W.A.; Gerrits, W.J.J.; Heetkamp, M.J.W.; Kemp, B.; Canh, T.T. (2005) Effects of increasing temperatures on physiological changes in pigs at different relative humidities Journal of Animal Science 83 (6). - p. 1385 - 1396. Jorritsma, R.; Langendijk, P.; Kruip, T.A.M.; Wensing, T.H.; Noordhuizen, J.P.T.M. (2005) Associations between Energy Metabolism, LH Pulsatility and First Ovulation in early Lactating Cows Reproduction in Domestic Animals 40 (1). - p. 68 - 72. Kachamakova, N.M.; Irnazarow, I.; Parmentier, H.K.; Savelkoul, H.F.J.; Pilarczyk, A.; Wiegertjes, G.F. (2006) Genetic differences in natural antibody levels in common carp (Cyprinus carpio L.) Fish and Shellfish Immunology 21 (4). - p. 404 - 413. 38 WIAS Midterm Review 2007 Adaptation Physiology Kemp, B.; Soede, N.M.; Langendijk, P. (2005) Effects of boar contact and housing conditions on estrus expression in sows Theriogenology 63 (2). - p. 643 - 656. Kidson, A.; Rubio-Pomar, F.J.; Knegsel, A. van; Tol, H.T.A. van; Hazeleger, W.; Ducro-Steverink, D.W.B.; Colenbrander, B.; Dieleman, S.J.; Bevers, M.M. (2004) Quality of porcine blastocysts produced in vitro in the presence of absence of GH Reproduction 127 . - p. 165 - 177. Kies, A.K.; Gerrits, W.J.J.; Schrama, J.W.; Heetkamp, M.J.W.; Linden, K.L. van der; Zandstra, T.; Verstegen, M.W.A. (2005) Mineral absorption and excretion as affected by microbial phytase and their effect on energy metabolism in young piglets Journal of Nutrition 135 (5). - p. 1131 - 1138. Knegsel, A.T.M. van; Brand, H. van den; Dijkstra, J.; Tamminga, S.; Kemp, B. (2005) Effect of dietary energy source on energy balance, production, metabolic disorders and reproduction in lactating dairy cattle Reproduction Nutrition Development 45 . - p. 665 - 688. Kranendonk, G.; Hopster, H.; Eerdenburg, F. van; Reenen, C.G. van; Wolthuis-Fillerup, M.; Groot, J. de; Korte, S.M.; Taverne, M. (2005) Evaluation of oral administration of cortisol as a model for prenatal stress in pregnant sows American Journal of Veterinary Research 66 (5). - p. 780 - 790. Kuller, W.I.; Soede, N.M.; Beers-Schreurs, H.M.G.; Langendijk, P.; Taverne, M.A.M.; Verheijden, J.H.M.; Kemp, B. (2004) Intermittent suckling: Effects on piglet and sow performance before and after weaning Journal of Animal Science 82 (2). - p. 405 - 413. Lammers, A.; Klomp, M.E.V.; Nieuwland, M.G.B.; Savelkoul, H.F.J.; Parmentier, H.K. (2004) Adoptive transfer of natural antibodies to non-immunized chickens affects subsequent antigen-specific humoral and cellular immune responses Developmental and Comparative Immunology 28 (1). - p. 51 - 60. Langendijk, P.; Soede, N.M.; Kemp, B. (2005) Uterine activity, sperm transport, and the role of boar stimuli around insemination in sows Theriogenology 63 (2). - p. 500 - 513. Langendijk, P.; Schams, D.; Soede, N.; Kemp, B. (2006) Boar Contact does not Induce Oxytocin Release During the Period of Embryo Migration in Sows Reproduction in Domestic Animals 41 (3). - p. 238 - 240. Loon, D.P.R. van; Hangalapura Nagarajappa, B.; Vries Reilingh, G. de; Nieuwland, M.G.B.; Kemp, B.; Parmentier, H.K. (2004) Effect of three different housing systems on immune responses and body weight of chicken lines divergently selected for antibody responses to sheep red blood cells Livestock Production Science 85 (2-3). - p. 139 - 150. Lourens, A.; Brand, H. van den; Meijerhof, R.; Kemp, B. (2005) Effect of Eggshell Temperature During Incubation on Embryo Development, Hatchability, and Posthatch Development Poultry Science 84 (6). - p. 914 - 920. Lourens, A.; Molenaar, R.; Brand, H. van den; Heetkamp, M.J.W.; Meijerhof, R.; Kemp, B. (2006) Effect of Egg Size on Heat Production and the Transition of Energy from Egg to Hatchling Poultry Science 85 (4). - p. 770 - 776. 39 WIAS Midterm Review 2007 Adaptation Physiology Lourens, A.; Brand, H. van den; Heetkamp, M.J.W.; Meijerhof, R.; Kemp, B. (2006) Metabolic Responses of Chick Embryos to Short-Term Temperature Fluctuations Poultry Science 85 (6). - p. 1081 - 1086. Maldonado, L.M.E.; Lammers, A.; Nieuwland, M.G.B.; Vries Reilingh, G. de; Parmentier, H.K. (2005) Homotopes affect primary and secondary antibody responses in poultry Vaccine 23 (21). - p. 2731 - 2739. Parmentier, H.K.; Lammers, A.; Hoekman, J.J.; Vries Reilingh, G. de; Zaanen, I.T.A.; Savelkoul, H.F.J. (2004) Different levels of natural antibodies in chickens divergently selected for specific antibody responses Developmental and Comparative Immunology 28 (1). - p. 39 - 49. Parmentier, H.K.; Kieboom, W.J.A. van den; Nieuwland, M.G.B.; Vries Reilingh, G. de; Hangalapura, B.N.; Savelkoul, H.F.J.; Lammers, A. (2004) Differential effects of lipopolysaccharide and lipoteichoic acid on the primary antibody response to keyhole limpet hemocyanin of chickens selected for high or low antibody responses to sheep red blood cells Poultry Science 83 (7). - p. 1133 - 1139. Parmentier, H.K.; Baelmans, R.; Savelkoul, H.F.J.; Dorny, P.; Demey, F.; Berkvens, D. (2004) Serum haemolytic complement activities in 11 different MHC (B) typed chicken lines Veterinary Immunology and Immunopathology 100 (1-2). - p. 25 - 32. Parmentier, H.K.; Star, L.; Sodoyer, S.C.; Nieuwland, M.G.B.; Vries Reilingh, G. de; Lammers, A.; Kemp, B. (2006) Age- and Breed-Dependent Adapted Immune Responsiveness of Poultry to Intratracheal-Administered, Pathogen-Associated Molecular Patterns Poultry Science 85 (12). - p. 2156 - 2168. Peet-Schwering, C.M.C. van der; Kemp, B.; Plagge, J.G.; Vereijken, P.F.G.; Hartog, L.A. den; Spoolder, H.A.M.; Verstegen, M.W.A. (2004) Performance and individual feed intake characteristics of group-housed sows fed a nonstarch polysaccharides diet ad libitum during gestation over three parities Journal of Animal Science 82 (4). - p. 1246 - 1257. Peet-Schwering, C.M.C. van der; Kemp, B.; Binnendijk, G.P.; Hartog, L.A. den; Vereijken, P.F.G.; Verstegen, M.W.A. (2004) Effects of additional starch or fat in late-gestating high nonstarch polysaccharide diets on litter performance and glucose tolerance in sows Journal of Animal Science 82 (10). - p. 2964 - 2971. Roelofs, J.B.; Bouwman, E.G.; Dieleman, S.J.; Eerdenburg, F.J.C.M. van; Kaal, L.M.T.E.; Soede, N.M.; Kemp, B. (2004) Influence of repeated rectal ultrasound examinations on hormone profiles and behaviour around oestrus and ovulation in dairy cattle Theriogenology 62 (7). - p. 1337 - 1352. Roelofs, J.B.; Eerdenburg, F.J.C.M. van; Soede, N.M.; Kemp, B. (2005) Pedometer readings for estrous detection and as predictor for time of ovulation in diary cattle Theriogenology 64 (8). - p. 1690 - 1703. Roelofs, J.B.; Eerdenburg, F.J.C.M. van; Soede, N.M.; Kemp, B. (2005) Various behavioral signs of estrous and their relationship with time of ovulation in dairy cattle Theriogenology 63 (5). - p. 1366 - 1377. Roelofs, J.B.; Eerdenburg, F.J.C.M. van; Hazeleger, W.; Soede, N.M.; Kemp, B. (2006) Relationship between progesterone concentrations in milk and blood and time of ovulation in dairy cattle Animal Reproduction Science 91 (3-4). - p. 337 - 343. 40 WIAS Midterm Review 2007 Adaptation Physiology Roelofs, J.B.; Soede, N.M.; Kemp, B. (2006) Insemination strategy based on ovulation prediction in dairy cattle Vlaams Diergeneeskundig Tijdschrift 75 (2). - p. 70 - 78. Roelofs, J.B.; Bouwman, E.B.; Pedersen, H.G.; Riestra Rasmussen, Z.; Soede, N.M.; Thomsen, P.D.; Kemp, B. (2006) Effect of time of artificial insemination on embryo sex ratio in dairy cattle Animal Reproduction Science 93 (3-4). - p. 366 - 371. Roelofs, J.B.; Graat, E.A.M.; Mullaart, E.; Soede, N.M.; Voskamp-Harkema, W.; Kemp, B. (2006) Effects of insemination-ovulation interval on fertilization rates and embryo characteristics in dairy cattle Theriogenology 66 (9). - p. 2173 - 2181. Rommers, J.M.; Meijerhof, R.; Noordhuizen, J.P.T.M.; Kemp, B. (2004) The effect of level of feeding in early gestation on reproductive success in young rabbit does Animal Reproduction Science 81 (1-2). - p. 151 - 158. Rommers, J.M.; Boiti, C.; Brecchia, G.; Meijerhof, R.; Noordhuizen, J.P.T.M.; Decuypere, E.; Kemp, B. (2004) Metabolic adaptation and hormonal regulation in young rabbit does during long-term caloric restriction and subsequent compensatory growth Animal Science 79 (2). - p. 255 - 264. Rommers, J.M.; Meijerhof, R.; Noordhuizen, J.P.T.M.; Kemp, B. (2004) Effect of feeding program during rearing and age at first insemination on performances during subsequent reproduction in young rabbit does Reproduction Nutrition Development 44 . - p. 321 - 332. Rommers, J.M.; Boiti, C.; Jong, I.C. de; Brecchia, G. (2006) Performance and behaviour of rabbit does in a group-housing system with natural mating or artificial insemination Reproduction Nutrition Development 46 (6). - p. 677 - 687. Rubio Pomar, F.J.; Ducro-Steverink, D.W.B.; Hazeleger, W.; Teerds, K.J.; Colenbrander, B.; Bevers, M.M. (2004) Development, DNA fragmentation and cell death in porcine embryos afer 24 h storage under different conditions Theriogenology 61 (1). - p. 147 - 158. Siwek, M.Z.; Cornelissen, S.J.B.; Buitenhuis, A.J.; Nieuwland, M.G.B.; Bovenhuis, H.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Parmentier, H.K.; Poel, J.J. van der (2004) Quantitative trait loci for body weight in layers differ from quantitative to loci specific for antibody responses to sheep red blood cells Poultry Science 83 (6). - p. 853 - 859. Siwek, M.Z.; Buitenhuis, A.J.; Cornelissen, S.J.B.; Nieuwland, M.G.B.; Knol, E.F.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Parmentier, H.K.; Poel, J.J. van der (2006) Detection of QTL for innate: Non-specific antibody levels binding LPS and LTA in two independent populations of laying hens Developmental and Comparative Immunology 30 (7). - p. 659 - 666. Siwek, M.Z.; Cornelissen, S.J.B.; Nieuwland, M.G.B.; Buitenhuis, A.J.; Bovenhuis, H.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Vries-Reilingh, G.; Parmentier, H.K.; Poel, J.J. van der (2006) Corrections for: Detection of QTL for immune response to Sheep Red Blood Cells in laying hens Animal Genetics 37 (6). - p. 608. Soede, N.M.; Sleuwen, M.J.W. van; Molenaar, R.; Rietveld, F.W.; Schouten, W.G.P.; Hazeleger, W.; Kemp, B. (2006) Influence of repeated regrouping on reproduction in gilts Animal Reproduction Science 96 (1-2). - p. 133 - 145. 41 WIAS Midterm Review 2007 Adaptation Physiology Souren, N.Y.P.; Langendijk, P.; Soede, N.M. (2005) Post-partum oestrusgedrag bij zeugen gaat niet gepaard met ovulatie Tijdschrift voor Diergeneeskunde 130 (17). - p. 502 - 507. Thomas, M.E.; Bouma, A.; Eerden, E. van; Landman, W.J.M.; Knapen, F. van; Stegeman, J.A.; Bergwerff, A.A. (2006) Detection of egg yolk antibodies reflecting Salmonella enteritidis infections using a surface plasmon resonance biosensor Journal of Immunological Methods 315 (1-2). - p. 68 - 74. Wieland, W.H.; Orzaéz Calatayud, D.V.; Lammers, A.; Parmentier, H.K.; Verstegen, M.W.A.; Schots, A. (2004) A functional polymeric immunoglobulin receptor in chicken (Gallus gallus) indicates ancient role of secretory IgA in mucosal immunity Biochemical Journal 380 (3). - p. 669 - 676. Wieland, W.H.; Lammers, A.; Schots, A.; Orzaéz, D.V. (2006) Plant expression of chicken secretory antibodies derived from combinatorial libraries Journal of Biotechnology 122 (3). - p. 382 - 391. Wieland, W.H.; Orzaéz, D.; Lammers, A.; Parmentier, H.K.; Schots, A. (2006) Display and selection of chicken IgA Fab fragments Veterinary Immunology and Immunopathology 110 (1-2). - p. 129 - 140. Zimmerman, P.H.; Lindberg, A.C.; Pope, S.J.; Glen, E.; Bolhuis, J.E.; Nicol, C.J. (2006) The effect of stocking density, flock size and modified management on laying hen behaviour and welfare in a non-cage system Applied Animal Behaviour Science 101 (1-2). - p. 111 - 124. Scientific articles in other journals Langendijk, P.; Gerritsen, R.; Hazeleger, W.; Soede, N.M.; Kemp, B. (2005) Lactational anoestrus in the sow The Pig Journal 55 (2). - p. 192 - 200. Refereed book chapters Groot, J. de; Boersma, W.J.A.; Staay, F.J. van der; Niewold, T.; Stockhofe, N.; Koopmans, S.J.; Lende, T. van der; Schuurman, T. (2005) Development of domestic animal models for the study of the ontogeny of human disease In: Perinatal Programming: Early Life Determinants of Adult Health & Disease / Hodgson, D.M., Coe, C.L., . Oxon, UK : Taylor & Francis Group, - p. 332. Rommers, J.M.; Maertens, L.; Kemp, B. (2006) New perspectives in rearing systems for rabbit does In: Recent Advances in Rabbit Sciences / Coudert, P., Maertens, L., . Proceedings (Full papers only) Brand, H. van den; Kemp, B. (2005) Nutritional effects on reproduction in the postpartum sow In: European Practitioners' Day, Kerkrade 2005. - Kerkrade : Brand, H. van den; Kemp, B. (2006) Dietary fat and reproduction in the post partum sow In: Control of Pig Reproduction VII: Seventh International Conference on Pig Reproduction, Rolduc, The Netherlands, June 12-15, 2005. - Nottingham, United Kingdom : Nottingham University Press, - p. 177 - 189. 42 WIAS Midterm Review 2007 Adaptation Physiology Brand, H. van den; Belt, K. van de (2006) Using telemetry to measure chicken embryo temperature: developing the technique In: Proceedings of the 12th European Poultry Conference, Verona, Italy, 10 - 14 September, 2006. - Verona : Veronafiere, Eerden, E. van; Brand, H. van den; Kemp, B. (2006) Profits and losses of dietary efficiency with respect to immune reactivity In: Proceedings of the 12th European Poultry Conference, Verona, Italy, 10 - 14 September, 2006. - Verona, Italy : Veronafiere, Gerritsen, R.; Langendijk, P.; Soede, N.M.; Hazeleger, W.; Dieleman, S.J.; Taverne, M.A.M.; Kemp, B. (2005) Intermittent Suckling: a system that benefits piglets and sows? In: European Practitioners' Day, Kerkrade 2005. - Kerkrade : Hazeleger, W.; Bouwman, E.; Peters, K; Ducro, D. (2005) Embryo Transfer in pigs: possibilities and limitations In: European Practitioners' Day, Kerkrade. - Kerkrade : Huynh Thi Thanh Thuy, --; Aarnink, A.J.A.; Gerrits, W.J.J.; Heetkamp, M.J.W.; Truong, C.T.; Spoolder, H.A.M.; Kemp, B.; Verstegen, M.W.A. (2004) Behavioural adaptation of fattening pigs to high ambient temperatures and humidities In: The Impact of Environmental Conditions on Animal Welfare, 2nd International Symposium, Krakow, Poland, 2004. - Krakow, Poland : - p. 49 - 52. Kemp, B.; Soede, N.M. (2004) Reproductive problems in primiparous sows In: Proceedings of the 18th IPVS Congress, Hoya, Germany, 27-06-2004 t/m 01-07-2004. - Hoya, Germany : IPVS Veranstalungs GmbH, - p. 843 - 848. Kemp, B. (2005) Problemy dotyczace rozrodu u loch pierwiastek In: Konferencja "Wipasz dla Praktyrów", 2005. Kemp, B.; Foxcroft, G.; Soede, N.M. (2006) Physiological determinants of litter size in contemporary dame-line sows In: Allen D. Leman Swine Conference, University of Alberta - University of Minnesota Reproduction Workshop: Achieving and Exceeding Sow Production Targets, Saint Paul, Minnesota, USA, 23 -26 September, 2006. - Saint Paul, Minnesota, USA : Kuller, W.I.; Soede, N.M.; Beers-Schreurs, H.M.G.; Langendijk, P.; Taverne, M.A.M.; Verheijden, J.H.M.; Kemp, B. (2005) Intermittent suckling: a system that benefits piglets? In: European Practitioners' Day, Kerkrade 2005. - Kerkrade : Langendijk, P.; Soede, N.M.; Kemp, B. (2006) Effects of boar stimuli on the follicular phase and on oestrous behaviour in sows In: Control of Pig Reproduction VII: Seventh International Conference on Pig Reproduction, Rolduc, The Netherlands, June 12-15, 2005. - Nottingham, United Kingdom : Nottingham University Press, - p. 219 - 230. Rijnen, M.M.J.A.; Doorenbos, J.; Mallo, J.J.; Hartog, L.A. den (2004) The application of the net energy system for swine In: Proceedings Western Nutrition Conference, Saskatoon, Saskatchewan, Canada, 28-30 September 2004. Saskatchewan, Canada : - p. 1 - 16. Rommers, J.M. (2004) Breeding of young females In: Proceedings of the 8th World Rabbit Congress, Mexico, 7-10 September 2004. - Mexico : - p. 1518 - 1531. 43 WIAS Midterm Review 2007 Adaptation Physiology Smits, C.H.M.; Ramaekers, P.; Kemp, B.; Hazeleger, W.; Wu, G. (2006) The role of functional nutrients in prenatal survival and growth of porcine fetuses in early gestation In: University of Alberta - University of Minnesota Reproduction Workshop: Achieving and Exceeding Sow Production Targets. Soede, N.M.; Kuller, W.I.; Langendijk, P.; Beers-Schreurs, H.M.G.; Taverne, M.A.M.; Kemp, B.; Verheijden, J.H.M. (2004) Effect of Intermittent Suckling of Follicular Development during Lactation In: Reproduction in Domestic Animals, 8th Conference of the European Society for Domestic Animal Reproduction, Warsaw, Poland, 23-25 September 2004. - Berlin, Germany : Blackwell Verlag GmbH, - p. 285. Star, L.S.; Ellen, E.D.; Uitdehaag, K.A.; Brom, F.W.A. (2006) Robustness of laying hens: an ethical approach In: Ethics and the politics of food. - Wageningen : Wageningen Academic Publishers, Wolters, I.; Groot, J. de; Boer, H.; Poel, A.F.B. van der (2004) A modified trypsin inhibitor affinity chromatography assay for industrial application In: Proceedings 4th ANF Workshop, Toledo, Spain, 8-10 March 2004. - Toledo, Spain : - p. 77 - 80. Scientific reports Knegsel, A.T.M. van; Brand, H. van den; Graat, E.A.M.; Dijkstra, J.; Jorritsma, R.; Decuypere, E.; Tamminga, S.; Kemp, B. (2006) Effect van energiesoort in het rantsoen en de energiebalans op plasma metabolieten en metabole hormonen in melkvee in de vroege lactatie Wageningen : Lsg Adaptatiefysiologie, Lsg Diervoeding, Schothorst, - p. 26. Knegsel, A.T.M. van; Brand, H. van den; Dijkstra, J.; Straalen, W.M. van; Heetkamp, M.J.W.; Tamminga, S.; Kemp, B. (2006) Effect van energiesoort in het rantsoen op de energiebalans en melksamenstelling bij melkvee in de vroege lactatie Wageningen : Lsg Adaptatiefysiologie, Lsg Diervoeding, Schothorst, - p. 1 - 35. Rijnen, M.M.J.A.; Schrama, J.W.; Borne, J.J.G.C. van den; Gerrits, W.J.J.; Cone, J.W.; Gelder, A.H. van (2004) Effecten van fermenteerbare grondstoffen op de fysieke activiteit in relatie tot energiebenutting bij varkens. Fase 2: Invloed van fermentatiesnelheid van fermenteerbare koolhydraten Wageningen : Wageningen Universiteit, - p. 43. Professional publications and products (incl. patents) Bolhuis, J.E. (2006) Individuele karaktereigenschappen en omgang met stressvolle omstandigheden Biotechniek 45 (2). - p. 43 - 47. Brand, H. van den (2004) Effect van toevoeging van dextrose tijdens de interval spenen-bronst op de technische resultaten van zeugen en biggen onder praktijkomstandigheden Wageningen : Animal Sciences Group, - p. 16. Brand, H. van den (2006) Son las dietas ricas en grasa beneficiosas para las hembras lactantes? SUIS 28 (5). - p. 24 - 33. Egerszegi, I.; Hazeleger, W.; Rátky, J.; Sarlós, P.; Kemp, B.; Bouwman, E.; Brüssow, K.P.; Solti, L. (2005) Eltérö Takarmányozási Szinteken Tartott, Különbözö Fajtájú Nöivarú Sertések Tüszöfejlödése Allattenyesztes es Takarmanyozas 54 (3). - p. 228 - 232. 44 WIAS Midterm Review 2007 Adaptation Physiology Knegsel, A.T.M. van; Brand, H. van den; Dijkstra, J.; Tamminga, S.; Kemp, B. (2004) Effect of dietary energy source on energy balance, production, metabolic disorders, health and reproduction in dairy cattle - a reviewWageningen : Animal Sciences Group, - p. 45. Lourens, A.; Wijngaard, J.C. van den; Oxley-Goody, D.; Brand, H. van den; Schneitz, C. (2004) Effect of In Ovo administration of a competitive exclusion product on hatchability, post hatch performance and natural antibodies Lelystad : Animal Sciences Group, - p. 20. Lourens, A.; Brand, H. van den; Kemp, B.; Meijerhof, R. (2005) Kleine afwijkingen, grote gevolgen: proef met eischaaltemperatuur tijdens broeden De Pluimveehouderij 35 (17). - p. 8 - 9. Roelofs, J.B.; Soede, N.M. (2005) Optimaal inseminatiemoment: hoger bevruchtingspercentage en betere embryokwaliteit bij vroeg inseminatietijdstip Veeteelt 22 (20). - p. 12 - 14. Rommers, J.M.; Gaag, M.A. van der; Coenen, E. (2004) Kooiverrijking: zin of onzin? Kontaktblad N.O.K. / Nederlandse Organisatie van Konijnenhouders 22 (3). - p. 9 - 13. Rommers, J.M.; Gaag, M.A. van der; Coenen, E.; Ruis, M.A.W. (2004) Onderzoek naar voorkeur voor ruwvoer bij voedsters Kontaktblad N.O.K. / Nederlandse Organisatie van Konijnenhouders 22 (4). - p. 10 - 15. 45 46 WIAS Midterm Review 2007 Animal Breeding and Genetics Animal Breeding and Genetics (ABG) Our Mission The Animal Breeding and Genomics Centre (ABGC) of Wageningen University provides education and generates knowledge on the role and sustainable use of genetic variation in farm and companion animals. ABGC contributes to our quality of life by providing knowledge to support the adequate supply of safe and healthy food of animal origin, and to enhance the health, welfare and productivity of animals. ABGC combines expertise in quantitative and molecular genetics related to the biological functioning of animals. We study genetic variation in farm and companions animals, and examine opportunities to use naturally occurring genetic variation in selection schemes. 1 Reflection on the previous assessment Strengthening collaboration with Lelystad The Animal Breeding and Genomics centre (ABGC) was created in 2006 to strengthen the collaboration between the Animal Breeding and Genetics groups in Wageningen and Lelystad. ABGC has a joint strategy for research and acquisition of projects, monthly meetings of the management to monitor and plan progress, and regular meetings of the staff to exchange research findings and ideas. ABGC develops expertise in 3 areas: 1. Animal Breeding: definition of breeding objectives, estimation of genetic variation in functioning (health, welfare, and production) of animals, estimation of genetic relationships between traits, and design of selection schemes. 2. Statistical genetics and genomics 3. Molecular genetics and bioinformatics: identification and study of the role of individual genes. These expertises are applied to the following 3 areas: 1. Utilisation and conservation of (agro)biodiversity 2. Animal Functioning (health, welfare and production) 3. Quality of animal products. Strengthening our position in EU After our previous peer review in 2004, we aimed to strengthen our research training network in the EU. In the last 3 years we have made substantial progress: • Partnered in research training network (Sabre-Train) funded by EU in 2005 (total of 9 PhD students, of which 4 will graduate at WU). • Doubled the number of PhD students in our group from other EU member countries from 3 in 2003 to 6 in 2007. • Increased the total number of post-docs from 1 in 2003 to 8.2 in 2007, of which two are coming from other EU member countries. • Coordinated the successful application for European Master of Animal Breeding and Genetics (EM-ABG): a two-year MSc program offered by 6 EU universities. Provides 25 scholarships for non-EU students, funded by EU-Erasmus Mundus program for 5 years starting in 2007. Provides unique opportunity to strengthen collaboration within EU and to train the next generation of PhD students. • Increased involvement in EU-funded projects (Eadgene, Aquafirst, Sabre) (3 PhDs, 1 post-doc in 2006). 47 WIAS Midterm Review 2007 Animal Breeding and Genetics Strengthening collaboration with other groups The peer review committee commented that our focus on genetic disciplines “may limit the required integration with other disciplines in animal sciences”. In recent years, we have increased the number of collaborative research projects with other groups, within and outside animal sciences (joint PhD projects with ADP, CBI, AFI, BEC, PDQ and EZO). The recently funded NWO-Horizon project “Songbird genomics” serves as a good example to demonstrate that our activities and focus on chicken genomics offers unique opportunities for collaboration, in this case with the KNAW institute on ecology in Heteren. Sustaining our growth Through a deliberate increase in the number of post-docs on longer term contract (3 to 4 years), we increased our capacity to supervise PhD students, offered PhD graduates an opportunity to continue their scientific career, and attracted expertise from elsewhere (none of the current post-docs has completed his/her degree at ABGC). The increase in number of post-docs and the concentration on larger research programmes (see under research input) have enabled the increase in the number of MSc and PhD students in the last 3 years. 2 Research input Main achievements since our previous peer review: • Increased research input through increase in number of post-docs and PhD students funded by national science foundation (NWO). • Obtained external funding for a number of larger research projects (3 or more persons), which offers excellent opportunities to focus our research activities, to increase critical mass, and to establish collaboration with other groups. Examples (number of fte scientists involved in 2007): Milk Genomics Initiative with dairy science group and BEC (7 fte); Robust laying hens with ADP (4 fte); Ascites in broilers with the group of prof DeCuypere, University of Leuven, Belgium (3 fte); Imprinting in pigs (3.2 fte) • Increase in number of postdocs: from 1 in 2003 to 8.2 in 2007 (6.2 funded by NWO). • Obtained NWO VENI fellowship (2006) for dr Bas Rodenburg to work on behavioural genetics. This is the first VENI fellowship within WIAS. We aim for 1 VENI or VIDI fellowship once every 2 years. • Achieved additional funding by linking breeding to other players in the animal production chain, e.g. Dutch Udder Health Centre (UGCN) and Dairy Industry. We aim to expand this in the coming period in the area of nutrigenomics (jointly with other groups within and outside WIAS). • Increased the number of PhD students employed by Wageningen University while we maintained a similar number of other PhD students. The latter was achieved by applying a stronger selection of candidates that applied for a PhD position in order to improve the quality of our research. 48 WIAS Midterm Review 2007 Animal Breeding and Genetics Table 2.1.a. Research staff during 2004-2006 (info on PhD students in Table 2.1.b) Name and present title Period of appointment Fte* Start End Full professors Prof. J.A.M. van Arendonk Nov 2001 1.0 Prof. F.W.A. Brom Feb 2004 0.3 Prof. M.A.M. Groenen Aug 2001 1.0 Associate professors Dr. H. Komen Dec 2006 1.0 Assistant professors Dr. H. Bovenhuis 1.0 Dr. P. Bijma 1.0 Dr. R.P.M.A. Crooijmans Nov 2000 1.0 Dr. E. Kanis 1.0 Dr. H. Komen Sep 2004 Dec 2006 1.0 Dr. J.J. van der Poel 1.0 Dr. E.H. van der Waaij Jan 2006 1.0 Non-tenured staff Dr. P. van As Apr 2006 1.0 Dr. J.W.M. Bastiaansen Sep 2006 0.9 Dr. H.C.M. Heuven Jul 2003 Nov 2006 1.0 Dr. H.C.M. Heuven Dec 2006 0.2 Ir. P.D. Koks Feb 2006 0.8 Dr. A.E. Liinamo Feb 2004 Dec 2005 1.0 Dr. H.J. Megens Nov 2004 0.8 Dr. T.B. Rodenburg Sept 2006 0.8 Dr. M. Visker Feb 2006 1.0 * fte regards the total appointment; tenured staff has approximately 40% available for research Table 2.2 Research input in fte by tenured staff, postdocs and PhD students 2004 Tenured staff Post-docs and other non-tenured staff AIO/OIOs Other PhD students * Total 2.4 2.0 3.2 2.7 10.2 2005 2.6 1.9 4.9 1.5 10.8 2006 2.7 4.3 7.7 1.1 15.8 Average 1999-2003 3.4 0.5 7.2 3.1 14.2 * research time of external, guest and sandwich PhD students is counted only when spent in Wageningen Table 2.3 Research funding in fte by staff, postdocs and PhD students 2004 University funded NWO funded Contract Total 5.2 2.1 2.9 10.2 2005 4.1 2.1 4.7 10.8 2006 4.3 5.4 6.1 15.8 Average 1999-2003 5.3 5.1 3.8 14.2 49 WIAS Midterm Review 2007 Animal Breeding and Genetics Table 2.1.b. PhD students in period 2004 to 2006. Collaboration with other WU groups is listed where applicable (coll.). Status Name Period of appointment Start End Employed S.C. Liefers Mar 2000 Feb 2004 D.G.J. Jennen Feb 1999 May 2004 B.J. Jungerius Sep 1999 Oct 2004 M. Herlihy Oct 2004 Mar 2005 M.Z. Siwek July 2000 Mar 2005 M.J.M. Rutten Dec 2001 May 2005 J. Aerts Dec 2001 Sep 2005 M.P.L. Calus April 2002 Mar 2006 S. van Hemert Dec 2001 Jan 2007 H.A. Mulder Mar 2003 Apr 2007 G. Pretzer Nov 2002 B. Ducro Jan 2003 P.A. Oliehoek Jun 2003 K.A. Uitdehaag Apr 2004 W.M. Stoop Oct 2004 A. Schennink Nov 2004 E.D. Ellen Nov 2004 H.H.D. Kerstens Apr 2005 L.Star May 2005 H. Nie Aug 2005 M.C. van Turnhout Aug 2005 N.B. Coster May 2006 E.M. van Grevenhof Jun 2006 M.G. Elferink Jun 2006 F. Biscarini Sep 2006 R. Blonk Sep 2006 T.C.W. Ploegaert Sep 2006 V. Xiarchou Sep 2006 A. Fonseca Oct 2006 A.M. Closter Nov 2006 G.C.B. Schopen Nov 2006 Guest A. Pakdel Sept 2000 Jun 2004 T. Rabie Jan 2000 Dec 2004 S. Zerehdaran Sep 2002 Sep 2005 W.J. Nauta Sep 2001 M. Nematollahi Aug 2003 H.D. Daetwyler Nov 2006 Sandwich I.S. Kosgey Apr 2000 Feb 2004 N.A. Bosso Oct 2001 Jan 2006 H. Charo-Karisa (till sep 2004 at AFI) Oct 2001 May 2006 Y. Fessahaye (till dec 2004 at AFI) Jul 2002 Dec 2006 S. Gebremichael Gizaw Jul 2004 C. Massault Jan 2006 N.D. Mullu Sep 2006 External C. Schrooten Sep 1998 Jun 2004 F. Forabosco Jun 2002 Oct 2005 A. Albera Jun 1999 Sep 2006 H.J. van Wijk May 2002 Oct 2006 R. Bergsma Oct 2005 M. Caccamo Sep 2006 S. de Roos Oct 2006 Fte 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 0.5 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 0.5 1.0 0.5 1.0 0.5 1.0 1.0 Coll. ADP AFI ADP PDQ ADP EZO CBI PDQ MGS AFI AFI AFI 50 WIAS Midterm Review 2007 Animal Breeding and Genetics 3 Overview of the results • Publication output in the last 3 years (2004-2006) was higher than during the previous period (1999-2003): the number of PhD theses increased from an average of 4.6 to 6.3, and the number of papers in refereed journals increased from an average of 35.4 to 46 (Table 3.1). These increases are the result of an increase in research input and an increase in productivity. Productivity, measured as number of publications in refereed journals per fte research input (all), increased from an average of 2.5 in 1999-2003 to 3.8 in 20042006. Increase in productivity was even larger when expressed per fte tenured staff (Table 3.2). • ABGC aims to increase the number of publications in journals with high citation indexes in our field (e.g. Genetics and BMC Genomics). The average impact factor of the journal in which we published increase from an average of 2.2 in 1999-2003 to 3.0 in 2004-2006. • Our academic recognition and international collaboration in the field of chicken genomics is best illustrated by the co-authorship of 3 papers published in Nature in 2004 on chicken genome sequencing, SNP identification and physical mapping. • Prof Johan van Arendonk received the Justus-von-Liebig research award 2006 from the Christian Albrecht University in Kiel for his “outstanding contribution to agriculture through his innovative research and training of graduates on the use of biotechnology in animal breeding” Table 3.1 Publication output 2004 PhD theses Academic publications in refereed journals in other journals refereed book chapters non-refereed book chapters monographs edited books and special issues proceedings (full papers only) scientific reports Total academic publications Professional publications and products (incl. IP) Publications for the general public 7 53 0 0 0 0 0 2 0 55 3 1 2005 5 48 0 1 0 0 0 11 0 62 4 2 2006 7 37 0 1 0 0 0 17 0 53 10 6 Average 1999-2003 4.6 35.4 1.0 1.8 0.0 0.0 0.4 13.0 0.2 51.8 8.4 0.8 Table 3.2 Productivity: Number of publications per fte research input Per fte tenured staff Refereed journals Academic publications Per fte total research input Refereed journals Academic publications 5.2 5.4 4.5 6.0 2.3 3.4 2.5 3.6 2004 22.6 23.4 2005 18.8 24.3 2006 14.0 20.0 Average 1999-2003 10.3 22.8 51 WIAS Midterm Review 2007 Animal Breeding and Genetics 4 Analysis, perspectives and expectations of the Chair group Strengths • • • • • • • • • • Threats • • • Analysis • • • • Adjusted goals Adjusted strategy • • • Combination of expertise in the fields of quantitative, molecular genetics, and animal breeding Well equipped infrastructure for genomics research Strong international position in our fields as reflected by involvement in joint research projects, involvement in the Pig and Poultry Genome sequencing initiatives, and coordinating of EM-ABG Large number of scientific publications in a broad range of journals. Animal Breeding and Genomics centre: very close collaboration with “ABG groups” in Wageningen and Lelystad resulting in sufficient critical mass. Fruitful and long standing relationship with industry High costs of overhead and infrastructure (compared with international level) Increasing knowledge on genomes of (farm) animals to be applied Interest for robustness, agrobiodiversity, health and welfare of animals (performance under wide range of environments) Increasing interest to improve quality of animal products through genetic solutions Increase in administrative load Increasing costs and funding difficulties of infrastructure for molecular genetic research and bioinformatics Move from open programs to calls for large thematic programmes by funding agencies (Senter, NWO) Keep focus on combination of quantitative genetic and molecular genetics and on quality of research Collaboration with other groups essential: aim for larger research programmes Development of strategic collaboration within European Union (e.g. EADGENE and EM-ABG) Increase collaboration within Wageningen UR in field of molecular genetics and bioinformatics No need for adjustment Maintain the current composition of scientific staff, and aim for balanced growth Focus on further increase of quality Selection of partners within WIAS, WUR, NL and EU Weaknesses Opportunities 52 WIAS Midterm Review 2007 Animal Breeding and Genetics Annex List of publications 2004-2006 PhD theses Aerts, J. (2005) Chicken genome mapping - Constructing part of a road map for mining this bird's DNA WUR Wageningen UR. Promotor(en): Groenen, Prof dr M.A.M.. - Wageningen : - p. 187. Albera, A. (2006) Selection for beef traits and calving performance in Piemontese cattle Wageningen Universiteit. Promotor(en): Arendonk, Prof dr ir J.A.M. van, co-promotor(en): Groen, Dr ir A.F.; Carnier, P.. - [S.l. ] : [s.n.], - p. 175. Bosso, N.A. (2006) Genetic improvement of livestock in tsetse infested areas in West Africa WUR Wageningen UR. Promotor(en): Arendonk, Prof dr ir J.A.M. van, co-promotor(en): Waaij, E.H. van der. Calus, M.P.L. (2006) Estimation of genotype × environment interaction for yield, health and fertility in dairy cattle Wageningen Universiteit. Promotor(en): Arendonk, Prof dr ir J.A.M. van, co-promotor(en): Veerkamp, Dr ir R.F.. - [S.l. ] : [s.n.], - p. 181. Charo-Karisa, H. (2006) Selection for growth of Nile tilapia (Oreochromis niloticus L.) in low-input environments Wageningen Universiteit. Promotor(en): Verreth, Prof dr J.A.J.; Arendonk, Prof dr ir J.A.M. van, copromotor(en): Komen, Dr ir J.. - [S.l. ] : [s.n.], - p. 169. Fessehaye, Y. (2006) Natural mating in Nile tilapia (Oreochromis niloticus L.) : implications for reproductive success, inbreeding and cannibalism WUR Wageningen UR. Promotor(en): Verreth, Prof dr J.A.J.; Arendonk, Prof dr ir J.A.M. van, copromotor(en): Komen, Dr ir J.; Bovenhuis, Dr ir H.. - [S.l.] : [s.n.], - p. 149. Forabosco, F. (2005) Breeding for longevity in Italian Chianina cattle WUR Wageningen UR. Promotor(en): Arendonk, Prof dr ir J.A.M. van, co-promotor(en): Bijma, Dr ir P.; Bozzi, R.. - Wageningen : - p. 153. Jennen, D.G.J. (2004) Chicken fatness: from QTL to candidate gene Wageningen universiteit. Promotor(en): Groenen, Prof dr M.A.M., co-promotor(en): Crooijmans, Dr Ing R.P.M.A.. - [S.l.] : [s.n.], - p. 167. Jungerius, B.J. (2004) Implementation of SNPs in pig genetics: LD and QTL analysis WUR Wageningen UR. Promotor(en): Groenen, Prof dr M.A.M.; Oost, B.A. van, co-promotor(en): Pas, Dr M.F.W. te. - Wageningen : [s.n.], - p. 128. Kosgey, I.S. (2004) Breeding objectives and breeding strategies for small ruminants in the tropics Wageningen Universiteit. Promotor(en): Arendonk, Prof dr ir J.A.M. van, co-promotor(en): Gibson, J.P.. - [S.l.] : [s.n.], - p. 272. Liefers, S.C. (2004) Physiology and genetics of leptin in periparturient dairy cows Wageningen University. Promotor(en): Arendonk, Prof dr ir J.A.M. van, co-promotor(en): Lende, Dr ir T. van der; Veerkamp, Dr ir R.F.. - [S.l.] : [s.n.], - p. 135. 53 WIAS Midterm Review 2007 Animal Breeding and Genetics Pakdel, A. (2004) Genetic analysis of ascites-related traits in broilers Wageningen University. Promotor(en): Arendonk, Prof dr ir J.A.M. van, co-promotor(en): Bovenhuis, Dr ir H.. [S.l.] : [s.n.], - p. 133. Rabie, T. (2004) Pulmonary Hypertension Syndrome in Chicken: Peeking Under QTL Peaks WUR Wageningen UR. Promotor(en): Groenen, Prof dr M.A.M., co-promotor(en): Crooijmans, Dr Ing R.P.M.A.. - Wageningen : [s.n.], - p. 147. Rutten, M.J.M. (2005) Breeding for improved production of Nile tilapia (Oreochromis niloticus L.) WUR Wageningen UR. Promotor(en): Arendonk, Prof dr ir J.A.M. van; Verreth, Prof dr J.A.J., copromotor(en): Bovenhuis, Dr ir H.; Komen, Dr ir J.. - [S.I.] : [s.n.], - p. 122. Schrooten, C. (2004) Genomic variation in dairy cattle - Identification and use Wageningen University. Promotor(en): Arendonk, Prof dr ir J.A.M. van, co-promotor(en): Bovenhuis, Dr ir H.. [S.l.] : [s.n.], Siwek, M.Z. (2005) Different genetic bases of immune responses in laying hens WUR Wageningen UR. Promotor(en): Arendonk, Prof dr ir J.A.M. van, co-promotor(en): Poel, Dr J.J. van der; Parmentier, Dr ir H.K.. - [S.l.] : [s.n.], - p. 153. Thompson, P.N. (2006) Congenital myasthenic syndrome of Brahman cattle Utrecht Universiteit. Promotor(en): Heesterbeek, J.A.P.; Arendonk, Prof dr ir J.A.M. van. - [s.l.] : [s.n.], - p. 131. Wijk, H.J. van (2006) The Genetics of Pork Quality WUR Wageningen UR. Promotor(en): Groenen, Prof dr M.A.M., co-promotor(en): Bovenhuis, Dr ir H.. Wageningen : Grafisch Service Centrum Van Gils B.V., - p. 176. Zerehdaran, S. (2005) Genetic improvement for production and health in broilers WUR Wageningen UR. Promotor(en): Arendonk, Prof dr ir J.A.M. van, co-promotor(en): Waaij, E.H. van der. [S.l.] : [s.n.], - p. 125. Scientific articles in refereed journals Aerts, J.A.; Jungerius, B.J.; Groenen, M.A.M. (2004) POSA: perl objects for DNA sequencing data analysis BMC Genomics 5 (60). Aerts, J.; Veenendaal, T; Poel, J.J. van der; Crooijmans, R.P.M.A.; Groenen, M.A.M. (2005) Chromosomal assignment of chicken clone contigs by extending the consensus linkage map Animal Genetics 36 (3). - p. 216 - 222. Albera, A.; Carnier, P.; Groen, A.F. (2004) Definition of a breeding goal for the Piemontese breed: economic and biological values and their sensitivity to production circumstances. Livestock Production Science 89 (1). - p. 66 - 77. Albera, A.; Groen, A.F.; Carnier, P. (2004) Genetic relationships between calving performance and beef production traits in Piemontese cattle Journal of Animal Science 82 (12). - p. 3440 - 3446. 54 WIAS Midterm Review 2007 Animal Breeding and Genetics Alfaro Montoya, J.; Zuniga, G.; Komen, J. (2004) Induction of ovarian maturation and spawning by combined treatment of serotonin and a dopamine antagonist, spiperone in Litopenaeus stylirostris and Litopenaeus vannamei Aquaculture 236 (1-4). - p. 511 - 522. Arendonk, J.A.M. van; Liinamo, A.E. (2005) Animal breeding and genomics: Perspectives for dog breeding The Veterinary journal 170 (1). - p. 3 - 5. Ask, B.; Waaij, E.H. van der; Eck, J.H.H. van; Arendonk, J.A.M. van; Stegeman, J.A. (2006) Defining susceptibility of broiler chicks to colibacillosis Avian Pathology 35 (2). - p. 147 - 153. Ask, B.; Decuypere, E.; Waaij, E.H. van der (2006) Role of Thyroid Hormones, Maternal Antibodies, and Antibody Response in the Susceptibility to Colibacillosis of Broiler Genotypes Poultry Science 85 (12). - p. 2141 - 2148. Ask, B.; Waaij, E.H. van der; Stegeman, J.A.; Arendonk, J.A.M. van (2006) Genetic Variation among Broiler Genotypes in susceptibility to colibacillosis Poultry Science 85 (3). - p. 415 - 421. Berhan, A.; Arendonk, J.A.M. van (2006) Reproductive performance and mortality rate in Menz and Horro sheep following controlled breeding in Ethiopia Small Ruminant Research 63 (3). - p. 297 - 303. Bijma, P. (2006) Estimating maternal genetic effects in livestock Journal of Animal Science 84 (4). - p. 800 - 806. Boelling, D.; Groen, A.F.; Soerensen, P.; Madsen, P.; Jensen, J. (2004) Genetic improvement of livestock for organic farming systems Livestock Production Science 80 . - p. 79 - 88. Buitenhuis, A.J.; Rodenburg, T.B.; Wissink, P.H.; Visscher, J.; Koene, P.; Bovenhuis, H.; Ducro, B.J.; Poel, J.J. van der (2004) Genetic and phenotypic correlations between feather pecking behavior, stress response, immune reponse, and egg quality traits in laying hens Poultry Science 83 (7). - p. 1077 - 1082. Buitenhuis, A.J.; Rodenburg, T.B.; Siwek, M.Z.; Cornelissen, S.J.B.; Nieuwland, M.G.B.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Koene, P.; Bovenhuis, H.; Poel, J.J. van der (2004) Identification of QLTs involved in open-field behavior in young and ad laying hens Behavior Genetics 34 (3). - p. 325 - 333. Buitenhuis, A.J.; Rodenburg, T.B.; Siwek, M.Z.; Cornelissen, S.J.B.; Nieuwland, M.G.B.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Koene, P.; Bovenhuis, H.; Poel, J.J. van der (2005) Quantitative trait loci for behavioural traits in chicken Livestock Production Science 93 (1). - p. 95 - 103. Calus, M.P.L.; Bijma, P.; Veerkamp, R.F. (2004) Effects of data structure on the estimation of covariance functions to describe genotype by envrironment interactions in a reaction norm model Genetics, Selection, Evolution 36 (5). - p. 489 - 507. Calus, M.P.L.; Windig, J.J.; Veerkamp, R.F. (2005) Associations among descriptors of herd management and phenotypic and genetic levels of health and fertility Journal of Dairy Science 88 (6). - p. 2178 - 2189. 55 WIAS Midterm Review 2007 Animal Breeding and Genetics Charo, H.; Rezk, M.A.; Bovenhuis, H.; Komen, J. (2005) Heritability of cold tolerance in Nile tilapia, Oreochromis niloticus, juveniles Aquaculture 249 (1-4). - p. 115 - 123. Charo-Karisa, H.; Komen, J.; Rezk, M.A.; Reynolds, S.; Ponzoni, R.W.; Bovenhuis, H. (2006) Genetic and environmental factors affecting growth of Nile tilapia (Oreochromis niloticus) juveniles: modelling spatial correlations between hapas Aquaculture 255 . - p. 586 - 596. Christoffels, A.; Bartfai, R.; Srinivasan, H.; Komen, J; Orban, L. (2006) Comparative genomics in cyprinids: Common carp ESTs help the annotation of the zebrafish genome. BMC BIOINFORMATICS 7: Art. No. S2 Suppl. 5 2006 Consuegra, S.; Megens, H.J.W.C.; Schaschl, H.; Leon, K.M.; Stet, R.J.M.; Jordan, W.C. (2005) Rapid evolution of the MH class I locus results in different allelic compositions in recently diverged populations of Atlantic salmon Molecular Biology and Evolution 22 (4). - p. 1095 - 1106. Coopman, F.; Gengler, N.; Groen, A.F.; Smet, S. de; Zeveren, A. van (2004) Comparison of external morphological traits of newborns to inner morpholical traits of the dam in the doublemuscled Belgian Blue Beef breed. Journal of Animal Breeding and Genetics 121 (2). - p. 128 - 134. Dijk, A.J. van; Rens, B.T.T.M. van; Lende, T. van der; Taverne, M.A.M. (2005) Factors affecting duration of the expulsive stage of parturition and piglet birth intervals in sows with uncomplicated, spontaneous farrowings Theriogenology 64 (7). - p. 1573 - 1590. Ducro, B.J.; Koenen, E.P.C.; Tartwijk, J.M.F.M. van; Arendonk, J.A.M. van (2006) Genetic relations of first Stallion Inspection traits with dressage and show-jumping performance in competition of Dutch Warmblood horses Livestock Science 107 (1). - p. 81 - 85. Eldik, P van; Waaij, E.H. van der; Ducro, B.J.; Kooper, A.W.; Stout, T.A.E.; Colenbrander, B. (2006) Possible negative effects of inbreeding on semen quality in Shetland pony stallions Theriogenology 65 (6). - p. 1159 - 1170. Fessehaye, Y.; El-Bialy, Z.; Rezk, M.A.; Crooijmans, R.P.M.A.; Bovenhuis, H.; Komen, J. (2006) Mating systems and male reproductive success in Nile Tilapia (Oreochromis niloticus) in breeding hapas: A microsatellite analysis Aquaculture 256 (1-4). - p. 148 - 158. Fessehaye, Y.; Kabirb, A.; Bovenhuis, H.; Komen, J. (2006) Prediction of cannibalism in juvenile Oreochromis niloticus based on predator to prey weight ratio, and effects of age and stocking density Aquaculture 255 (1-4). - p. 314 - 322. Forabosco, F.; Bozzi, R.; Boettcher, P.; Filippini, F.; Bijma, P.; Arendonk, J.A.M. van (2005) Relationship between profitability and type traits and derivation of economic values for reproduction and survival traits in Chianina beef cows Journal of Animal Science 83 . - p. 2043 - 2051. Forabosco, F.; Bozzi, R.; Filippini, F.; Boettcher, P.; Arendonk, J.A.M. van (2006) Linear model vs. survival analysis for genetic evaluation of sires for longevity in Chianina beef cattle Livestock Science 101 (1-3). - p. 191 - 198. 56 WIAS Midterm Review 2007 Animal Breeding and Genetics Forabosco, F.; Boettcher, P.; Bozzi, R.; Filippini, F.; Bijma, P. (2005) Genetic selection strategies to improve longevity in Chianina beef cattle Italian Journal of Animal Science 5 . - p. 117 - 127. Forobasco, F.; Groen, A.F.; Bozzi, R.; Arendonk, J.A.M. van; Filippini, F.; Boettcher, P.; Bijma, P. (2004) Phenotypic relationships between longevity, type traits and production in Chianina beef cattle Journal of Animal Science 82 (6). - p. 1572 - 1580. Foulley, J.L.; Schriek, M. van; Groenen, M.A.M.; Heuven, H.C.M. (2006) Genetic diversity analysis using lowly polymorphic dominant markers: The example of AFLP in pigs. Journal of Heredity 97 (3). - p. 244 - 252. Galkina, S.A.; Deryusheva, S.; Fillon, V.; Vignal, A.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Rodionov, A.V.; Gaginskaya, E. (2006) Fish on avian lampbrush chromosomes produces higher resolution gene mapping Genetica 128 (1-3). - p. 241 - 251. Gandini, G.C.; Ollivier, L.; Danell, B.; Distl, O.; Georgoudis, A.; Groeneveld, E.; Martyniuk, E.; Arendonk, J.A.M. van; Woolliams, J.A. (2004) Criteria to assess the degree of endangerment of livestock breeds in Europe Livestock Production Science 91 (1-2). - p. 173 - 182. Geesink, G.H.; Buren, R.G.C. van; Savenije, B.; Verstegen, M.W.A.; Ducro, B.J.; Palen, J.G.P. van der; Hemke, G. (2004) Short-term feeding strategies and pork quality Meat Science 67 (1). - p. 1 - 6. Gorissen, B.M.C.; Ducro, B.J.; Tartwijk, H. van; Naber, G.; Eldik, P. van; Back, W. (2006) Uneven feet limit performance of a warmblood horse population European Journal of Epidemiology 21 (suppl. 13). - p. 40. Groenendaal, H.; Galligan, D.T.; Mulder, H.A. (2004) An economic spreadsheet model to determine optimal breeding and replacement decisions for dairy cattle Journal of Dairy Science 87 (7). - p. 2146 - 2157. Hagen, M.A.E. van; Ducro, B.J.; Knol, B.W. (2005) Life expectancy in a follow-up study of a birth cohort of boxer dogs from post weaning to 10-years of age American Journal of Veterinary Research 66 (9). - p. 1646 - 1650. Hagen, M.A.E. van; Ducro, B.J.; Broek, J. van de; Knol, B.W. (2005) Incidence, risk factors and heritability of hind limb lameness in dogs with canine hip dysplasia in a 8 year follow up study of a birth cohort of Dutch boxer dogs American Journal of Veterinary Research 66 (2). - p. 307 - 312. Hambrecht, E.; Eissen, J.J.; Klein, W.J.H.; Ducro, B.J.; Smits, C.H.M.; Verstegen, M.W.A.; Hartog, L.A. den (2004) Rapid chilling cannot prevent inferior pork quality caused by high preslaughter stress Journal of Animal Science 82 (2). - p. 551 - 556. Hambrecht, E.; Eissen, J.J.; Nooijen, R.I.J.; Ducro, B.J.; Smits, C.H.M.; Hartog, L.A. den; Verstegen, M.W.A. (2004) Preslaughter stress and muscle energy largely determine pork quality at two commercial processing plants Journal of Animal Science 82 . - p. 1401 - 1409. Hangalapura, B.N.; Kaiser, M.G.; Poel, J.J. van der; Parmentier, H.K.; Lamont, S.J. (2006) Cold stress equally enhances in vivo pro-inflammatory cytokine gene expression in chicken lines divergently selected for antibody responses Developmental and Comparative Immunology 30 (5). - p. 503 - 511. 57 WIAS Midterm Review 2007 Animal Breeding and Genetics Harlizius, B.; Wijk, H.J. van; Merks, J.W.M. (2005) Genomics for food safety and sustainable animal production Journal of Biotechnology 113 (1-3). - p. 33 - 42. Hemert, S. van; Hoekman, A.J.W.; Smits, M.A.; Rebel, J.M.J. (2004) Differences in intestinal gene expression proflies in broiler lines varying in susceptibility to malabsorption syndrome Poultry Science 83 (10). - p. 1675 - 1682. Hemert, S. van; Hoekman, A.J.W.; Smits, M.A.; Rebel, J.M.J. (2006) Gene expression responses to a Salmonella infection in the chicken intestine differ between lines Veterinary Immunology and Immunopathology 114 (1). - p. 247 - 258. Heuven, H.C.M.; Wijk, H.J. van; Arendonk, J.A.M. van (2004) Combining traditional breeding and genomics to improve pork quality Outlook on Agriculture 32 (4). - p. 235 - 239. Heuven, H.C.M.; Bovenhuis, H.; Janss, L.L.G.; Arendonk, J.A.M. van (2005) Efficiency of population structures for mapping of mendelian and imprinted quantitative trait loci (QTL) in outbred pigs using variance component methods Genetics, Selection, Evolution 37 . - p. 635 - 655. Hillier, L.W.; Miller, W.; Birney, E.; Groenen, M.A.M.; Crooijmans, R.P.M.A.; Aerts, J.; Poel, J.J. van der (2004) Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution Nature 432 (7018). - p. 695 - 716. Houweling, A.C.; Somi, S.; Massink, M.P.G.; Groenen, M.A.M.; Moorman, A.F.M.; Christoffels, V.M. (2005) Comparative analysis of the natriuretic peptide precursor gene cluster in vertebrates reveals loss of ANF and retention of CNP-3 in chicken Developmental Dynamics 233 (3). - p. 1076 - 1082. Huisman, A.E.; Arendonk, J.A.M. van (2004) Genetic parameters for daily feed intake patterns of growing Dutch Landrace gilts Livestock Production Science 87 (2-3). - p. 221 - 228. Jennen, D.G.J.; Crooijmans, R.P.M.A.; Morisson, M.; Grootemaat, A.E.; Poel, J.J. van der; Groenen, M.A.M. (2004) A radiation hybrid map of chicken Chromosome 15 Animal Genetics 35 (1). - p. 63 - 65. Jennen, D.G.J.; Vereijken, A.L.J.; Bovenhuis, H.; Crooijmans, R.P.M.A.; Poel, J.J. van der; Groenen, M.A.M. (2005) Confirmation of quantitative trait loci affecting fatness in chickens Genetics, Selection, Evolution 37 (2). - p. 215 - 228. Jennen, D.G.J.; Vereijken, A.L.J.; Bovenhuis, H.; Crooijmans, R.P.M.A.; Veenendaal, A.; Poel, J.J. van der; Groenen, M.A.M. (2004) Detection and Localization of Quantitative Trait Loci Affecting Fatness in Broilers Poultry Science 83 (3). - p. 295 - 301. Jungerius, B.J.; Laere, A.-S. van; Pas, M.F.W. te; Oost, B.A. van; Andersson, L.; Groenen, M.A.M. (2004) The IGF2-intron3-G3072A substitution explains a major imprinted QTL effect on backfat thickness in a Meishan x European white pig intercross Genetical Research 84 (2). - p. 95 - 101. 58 WIAS Midterm Review 2007 Animal Breeding and Genetics Jungerius, B.J.; Gu, J.; Crooijmans, R.P.M.A.; Poel, J.J. van der; Groenen, M.A.M.; Oost, B.A. van; Pas, M.F.W. te (2005) Estimation of the extent of linkage disequilibrium in seven regions of the porcine genome Animal Biotechnology 16 (1). - p. 41 - 54. Kaam, J.B.C.H.M. van; Bink, M.C.A.M.; Maizon, D.O.; Arendonk, J.A.M. van; Quaas, R.L. (2006) Bayesian reanalysis of a quantitative trait locus accounting for multiple environments by scaling in broilers Journal of Animal Science 84 (8). - p. 2009 - 2021. Kanis, E.; Belt, H. van den; Groen, A.F.; Schakel, J.; Greef, K.H. de (2004) Breeding for improved welfare in pigs: a conceptual framework and its use in practice Animal Science 78 (2). - p. 315 - 329. Kanis, E.; Greef, K.H. de; Hiemstra, A.; Arendonk, J.A.M. van (2005) Breeding for societally-important traits in pigs Journal of Animal Science 83 . - p. 948 - 957. Kolmodin, R.; Bijma, P. (2004) Response to mass selection when the genotype by environment interaction is modelled as a linear reaction norm Genetics, Selection, Evolution 36 . - p. 435 - 454. Kosgey, I.S.; Arendonk, J.A.M. van; Baker, R.L. (2004) Economic values for traits in breeding objectives for sheep in the tropics: impact of tangible and intangible benefits Livestock Production Science 88 (1-2). - p. 143 - 160. Kosgey, I.S.; Kahi, A.K.; Arendonk, J.A.M. van (2005) Evaluation of Closed Adult Nucleus Multiple Ovulation and Embryo Transfer and Conventional Progeny Testing Breeding Schemes for Milk Production from Crossbred Cattle in the Tropics In: Nucleus Breeding Schemes for Milk Production from Crossbred Cattle in the Tropics. - Journal of Dairy Science 88 . - p. 1582 - 1594. Kosgey, I.S.; Baker, R.L.; Udo, H.M.J.; Arendonk, J.A.M. van (2006) Successes and failures of small ruminant breeding programmes in the tropics: a review Small Ruminant Research 61 (1). - p. 13 - 28. Koudandé, O.D.; Arendonk, J.A.M. van; Iraqi, F. (2005) Marker-assisted introgression of Trypanotolerance QTL in mice Mammalian Genome 16 (2). - p. 112 - 119. Langlois, B.; Vrijenhoek, T. (2004) Qualification status and estimation of breeding value in French trotters Livestock Production Science 89 (2-3). - p. 187 - 194. Lende, T. van der; Kaal, L.M.T.E.; Roelofs, R.M.G.; Veerkamp, R.F.; Schrooten, C.; Bovenhuis, H. (2004) Infrequent Milk Progesterone Measurements in Daughters Enable Bull Selection for Cow Fertility Journal of Dairy Science 87 (11). - p. 3953 - 3957. Lende, T. van der; Pas, M.F.W. te; Veerkamp, R.F.; Liefers, S.C. (2005) Leptin gene polymorphisms and their phenotypic associations In: Vitamins and Hormones. - Vitamins and Hormones-Advances in Research and Applications 71 . - p. 373 404.Elsevier, (Vitamins and hormones ) - p. 373 - 404. Liefers, S.C.; Veerkamp, R.F.; Pas, M.F.W. te; Delavaud, C.; Chilliard, Y.; Lende, T. van der (2004) A missense mutation in the bovine leptin receptor gene is associated with leptin concentrations during late pregnancy Animal Genetics 35 . - p. 138 - 141. 59 WIAS Midterm Review 2007 Animal Breeding and Genetics Liefers, S.C.; Pas, M.F.W. te; Veerkamp, R.F.; Platje, M.; Delavaud, C.; Chilliard, Y.; Lende, T. van der (2005) Leptin promotor mutations affect leptin levels and performance traits in dairy cows Animal Genetics 36 (2). - p. 111 - 118. Liefers, S.C.; Veerkamp, R.F.; Pas, M.F.W. te; Chilliard, Y.; Lende, T. van der (2005) Genetics and physiology of leptin in periparturient dairy cows Domestic Animal Endocrinology 29 (1). - p. 227 - 238. Liefers, S.C.; Veerkamp, R.F.; Platje, M.; Delavaud, C.; Chilliard, Y.; Lende, T. van der (2005) Leptin promoter mutations affect leptin levels and performance traits in dairy cows Animal Genetics 36 (2). - p. 111 - 118. Lopez de Maturana, E.; Ugarte, E.; Komen, J.; Arendonk, J.A.M. van (2006) Estimation of economic value for calving ease in Basque Holstein population ITEA Produccion Animal 102 (2). - p. 222 - 230. Loywyck, V.; Bijma, P.; Pinard-van der Laan, M-H; Arendonk, J.A.M. van; Verrier, E. (2005) A comparison of two methods for prediction of response and rates of inbreeding in selected populations with the results obtained in two selection experiments Genetics, Selection, Evolution 37 . - p. 273 - 289. Maki, K.; Janss, L.L.G.; Groen, A.F.; Liinamo, A.E.; Ojala, M. (2004) An indication of major genes affecting hip and elbow dysplasia in four Finnish dog populations Heredity 92 (5). - p. 402 - 408. Masabanda, J.S.; Burt, D.W.; O'Brien, P.C.M.; Vignal, A.; Fillon, V.; Walsh, P.S.; Cox, H.; Tempest, H.G.; Smit, J.; Habermann, F.; Schmidt, M.; Matsuda, Y.; Ferguson-Smith, M.A.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Griffin, D.K. (2004) Molecular cytogenetic definition of the chicken genome: the first complete Avian Karyotype Genetics 166 (3). - p. 1367 - 1373. Meerburg, B.G.; Bonde, M.; Brom, F.W.A.; Endepols, S.; Jensen, A.N.; Leirs, H.; Lodal, J.; Singleton, G.R.; Pelz, H.J.; Rodenburg, T.B.; Kijlstra, A. (2004) Towards sustainable management of rodents in organic animal husbandry NJAS Wageningen Journal of Life Sciences 52 (2). - p. 195 - 205. Moraes Gonçalves, T. de; Nunes de Oliveira, H.; Bovenhuis, H.; Bink, M.C.A.M.; Arendonk, J.A.M. van (2005) Comparison of different strategies to analyze growth and carcass traits in a crossbred pig population: Finite and infinitesimal polygenic models Revista Brasileira de Zootecnia 34 (5). - p. 1531 - 1539. Moraes Gonçalves, T. de; Nunes de Oliveira, H.; Bovenhuis, H.; Bink, M.C.A.M.; Arendonk, J.A.M. van (2005) Alternative models for detection of quantitative trait loci (QTL) for growth and carcass traits in pigs chromosomes 4, 5 and 7 Revista Brasileira de Zootecnia 34 (5). - p. 1540 - 1552. Mulder, H.A.; Groen, A.F.; Jong, G.; Bijma, P. (2004) Genotype x environment interaction for yield and somatic cell score with automatic and conventional milking systems Journal of Dairy Science 87 (5). - p. 1487 - 1495. Mulder, H.A.; Bijma, P. (2004) Effects of genotype x environment interaction on genetic gain in breeding programs Journal of Animal Science 83 (1). - p. 49 - 61. 60 WIAS Midterm Review 2007 Animal Breeding and Genetics Mulder, H.A.; Veerkamp, R.F.; Ducro, B.J.; Arendonk, J.A.M. van; Bijma, P. (2006) Optimization of dairy cattle breeding programs for different environment with genotype by environment interaction Journal of Dairy Science 89 (5). - p. 1740 - 1752. Mulder, H.A.; Bijma, P. (2006) Benefits of cooperation between breeding programs in the presence of genotype by environment interaction Journal of Dairy Science 89 (5). - p. 1727 - 1739. Mäki, K.; Liinamo, A.E.; Groen, A.F.; Bijma, P.; Ojala, M. (2005) The effect of breeding schemes on the genetic response of canine hip dysplasia, elbow dysplasia, appearance and behaviour traits Animal Welfare 14 (2). - p. 117 - 124. Nauta, W.J.; Groen, A.F.; Veerkamp, R.F.; Roep, D.; Baars, T. (2005) Animal breeding in organic dairy farming : an inventory of farmers' views and difficulties to overcome NJAS Wageningen Journal of Life Sciences 53 (1). - p. 19 - 34. Nauta, W.J.; Baars, T.; Bovenhuis, H. (2006) Converting to organic dairy farming: Consequences for production, somatic cell scores and calving interval of first parity Holstein cows Livestock Science 99 (2-3). - p. 185 - 195. Nauta, W.J.; Veerkamp, R.F.; Brascamp, E.W.; Bovenhuis, H. (2006) Genotype by Environment Interaction for Milk Production Traits Betweeen Organic and Conventional Dairy Production in The Netherlands Journal of Dairy Science 89 (7). - p. 2729 - 2737. Nielsen, H.M.; Groen, A.F.; Pedersen, J.; Berg, P. (2004) Stochastic simulation of economic values and their standard deviations for production and functional traits under current and future Danish production circumstances Acta Agriculturae Scandinavica Section A-Animal Science 54 (3). - p. 113 - 126. Nielsen, H.M.; Christensen, L.G.; Groen, A.F. (2005) Derivation of sustainable breeding goals for dairy cattle using selection index theory Journal of Dairy Science 88 (5). - p. 1882 - 1890. Nielsen, H.M.; Groen, A.F.; Ostergaard, S.; Berg, P. (2006) Astochastic model for the derivation of economic values and their standard deviations for production and functional traits in dairy cattle. Acta Agriculturae Scandinavica Section A-Animal Science 56 (1). - p. 16 - 32. Oliehoek, P.A.; Windig, J.J.; Arendonk, J.A.M. van; Bijma, P. (2006) Estimating relatedness between individuals in general populations with a focus on their use in conservation programs Genetics 173 . - p. 483 - 496. Ollivier, L.; Alderson, L.; Gandini, G.C.; Foulley, J.L.; Haley, C.S.; Joosten, R.; Rattink, A.P.; Harlizius, B.; Groenen, M.A.M. (2005) An assessment of the European pig diversity using molecular markers: partitioning of diversity among breeds Conservation Genetics 6 (5). - p. 729 - 741. Pakdel, A.; Arendonk, J.A.M. van; Vereijken, A.L.J.; Bovenhuis, H. (2005) Genetic parameters of ascites-related traits in broilers: effect of cold and normal temperature conditions British Poultry Science 46 (1). - p. 35 - 42. 61 WIAS Midterm Review 2007 Animal Breeding and Genetics Pakdel, A.; Arendonk, J.A.M. van; Vereijken, A.L.J.; Bovenhuis, H. (2005) Genetic parameters of ascites-related traits in broilers: correlations with feed efficiency and carcase traits British Poultry Science 46 (1). - p. 43 - 53. Pakdel, A.; Bijma, P.; Ducro, B.J.; Bovenhuis, H. (2005) Selection strategies for body weight and reduced ascites susceptibility in broilers Poultry Science 84 . - p. 528 - 535. Pitel, F.; Abasht, B.; Morrison, M.; Crooijmans, R.P.M.A.; Vignoles, F.; Leroux, S.; Feve, K.; Bardes, S.; Milan, D.; Lagarrigue, S.; Groenen, M.A.M.; Douaire, M.; Vignal, A. (2004) A high-resolution radiation hybrid map of chicken chromosome 5 and comparison with human chromosomes BMC Genomics 5 (1). - p. 66. Pretzer, G.; Snel, J.; Molenaar, D.; Wiersma, A.; Bron, P.A.; Lambert, J.M.; Vos, W.M. de; Meer, R. van der; Smits, M.A.; Kleerebezem, M. (2005) Biodiversity-based identification and functional characterization of the mannose-specific adhesin of Lactobacillus plantarum Journal of Bacteriology 187 (17). - p. 6128 - 6136. Rabie, T.; Crooijmans, R.P.M.A.; Morisson, M.; Andryszkiewicz, J.; Poel, J.J. van der; Vignal, A.; Groenen, M.A.M. (2004) A radiation hybrid map of chicken Chromosome 4 Mammalian Genome 15 (7). - p. 560 - 569. Rabie, T.S.K.M.; Crooijmans, R.P.M.A.; Bovenhuis, H.; Vereijken, A.L.J.; Veenendaal, A.; Poel, J.J. van der; Arendonk, J.A.M. van; Pakdel, A.; Groenen, M.A.M. (2005) Genetic mapping of quantitative trait loci affecting susceptibility in chicken to develop the Pulmonary Hypertension Syndrome (PHS) Animal Genetics 36 (6). - p. 468 - 476. Rebel, J.M.J.; Balk, F.R.M.; Post, J.; Hemert, S. van; Zekarias, B.; Stockhofe, N. (2006) Malabsorption syndrome in broilers World's Poultry Science Journal 62 . - p. 17 - 31. Rebel, J.M.J.; Hemert, S. van; Hoekman, A.J.W.; Francis, R.M.; Balk, F.R.M.; Smits, M.A. (2006) Maternal diet influences gene expression in intestine of offspring in chicken (Gallus gallus) Journal of Comparative Biochemistry and Physiology. Part A Molecular & Integrative Physiology 145 (4). - p. 502 - 508. Rebel, J.M.J.; Hemert, S. van; Hoekman, A.J.W.; Balk, F.R.M.; Bakker, D.; Smits, M.A. (2006) Mother diet influence gene expresison in the intestine of the offspring Comparative Biochemistry and Physiology 145 . - p. 502 - 508. Rens, B.T.T.M. van; Lende, T. van der (2004) Parturition in gilts: duration of farrowing, birth intervals and placenta expulsion in relation to maternal, piglet and placental traits Theriogenology 62 (1-2). - p. 331 - 352. Rens, B.T.T.M. van; Koning, G. de; Bergsma, R.; Lende, T. van der (2005) Preweaning piglet mortality in relation to placental efficiency Journal of Animal Science 83 (1). - p. 144 - 151. Rodenburg, T.B.; Buitenhuis, A.J.; Ask, B.; Uitdehaag, K.A.; Koene, P.; Poel, J.J. van der; Arendonk, J.A.M. van; Bovenhuis, H. (2004) Genetic and phenotypic correlations between feather pecking and open-field reponse in laying hens at two different ages Behavior Genetics 34 (4). - p. 407 - 415. 62 WIAS Midterm Review 2007 Animal Breeding and Genetics Rodenburg, T.B.; Hierden, Y.M. van; Buitenhuis, A.J.; Riedstra, B.; Koene, P.; Korte, S.M.; Poel, J.J. van der; Groothuis, T.G.G.; Blokhuis, H.J. (2004) Feather pecking in laying hens: new insights and directions for research? Applied Animal Behaviour Science 86 (3-4). - p. 291 - 298. Rodenburg, T.B.; Koene, P.; Bokkers, E.A.M.; Bos, M.E.H.; Uitdehaag, K.A.; Spruijt, B.M. (2005) Can short-term frustration facilitate feather pecking in laying hens? Applied Animal Behaviour Science 91 (1-2). - p. 85 - 101. Ruane, N.M.; Lambert, J.G.D.; Goos, H.J.Th.; Komen, J. (2005) Hypocorticism and interrenal hyperplasia are not directly related to masculinization in XXmas(-1)/mas(-1) carp, Cyprinus carpio General and Comparative Endocrinology 143 (1). - p. 66 - 74. Rutten, M.J.M.; Bovenhuis, H.; Komen, J. (2004) Modelling of fillet traits based on body measurements in three Nile tilapia strains (Oreochromis niloticus L.) Aquaculture 231 (1-4). - p. 113 - 133. Rutten, M.J.M.; Komen, J.; Deerenberg, R.M.; Siwek-Gapinska, M.Z.; Bovenhuis, H. (2004) Genetic characterisation of four strains of Nile tilapia (Oreochromie Niloticus L.) using microsatellite markers Animal Genetics 35 . - p. 93 - 97. Rutten, M.J.M.; Bovenhuis, H.; Komen, J. (2005) Genetic parameters for fillet traits and body measurements in Nile tilapia (Oreochromis niloticus L.) Aquaculture 246 (1-4). - p. 125 - 132. Rutten, M.J.M.; Komen, J.; Bovenhuis, H. (2005) Longitudinal genetic analysis of Nile tilapia (Oreochromis niloticus L.) body weight using a random regression model Aquaculture 246 (1-4). - p. 101 - 113. Samore, A.; Groen, A.F. (2006) Proposal of an udder health genetic index for the Italian Holstein Friesian based of first lactation data Italian Journal of Animal Science 5 . - p. 215 - 227. SanCristibal, M.; Chevalet, C.; Peleman, J.; Heuven, H.C.M.; Brugmans, B.W.; Schriek, M. van; Joosten, R.; Rattink, A.P.; Harlizius, B.; Groenen, M.A.M.; Amigues, Y.; Boscher, M.Y.; Russell, G.; Law, A.; Davoli, R.; Russo, V.; Desautes, C.; Alderson, L.; Fimland, E.; Bagga, M.; Delgado, J.V.; Vega-Pla, J.L.; Marinez, A.M.; Ramos, M.; Glodek, P.; Meyer, J.N.; Gandini, G.C. (2006) Genetic diversity in European pigs utilizing amplified fragment lenght polymorphism markers. AFLP markers Animal Genetics 37 (3). - p. 232 - 238. SanCristobal, M.; Chevalet, C.; Haley, C.S.; Joosten, R.; Rattink, A.P.; Harlizius, B.; Groenen, M.A.M. (2006) Genetic diversity within and between European pig breeds using microsatellite markers Animal Genetics 3 (37). - p. 189 - 198. Schmid, M.; Nanda, I.; Hoehn, H.; Schartl, M.; Haaf, T.; Buerstedde, J.M.; Arakawa, H.; Caldwell, R.B.; Weigend, S.; Burt, D.W.; Smith, J.; Griffin, D.K.; Masabanda, J.S.; Groenen, M.A.M.; Crooijmans, R.P.M.A.; Vignal, A.; Fillon, V.; Morisson, M.; Pitel, F.; Vignoles, M.; Garrigues, A.; Gellin, J.; Rodionov, A.V.; Galkina, S.A.; Lukina, N.A.; Ben-Ari, G.; Blum, S.; Hillel, J.; Twito, T.; Lavi, U.; David, L.; Feldman, M.W.; Delany, M.E.; Conley, C.C.; Fowler, V.M.; Hedges, S.B.; Godbout, R.; Katyal, S.; Smith, C.; Hudson, Q.; Sinclair, A.; Mizuno, S. (2005) Second report on chicken genes and chromosomes 2005 Cytogenetic and Genome Research 109 (4). - p. 415 - 479. Schrooten, C.; Bink, M.C.A.M.; Bovenhuis, H. (2004) Whole Genome Scan to Detect Chromosomal Regions Affecting Multiple Traits in Dairy Cattle Journal of Dairy Science 87 (10). - p. 3550 - 3560. 63 WIAS Midterm Review 2007 Animal Breeding and Genetics Schrooten, C.; Bovenhuis, H.; Arendonk, J.A.M. van; Bijma, P. (2005) Genetic Progress in Multistage Dairy Cattle Breeding Schemes Using Genetic Markers Journal of Dairy Science 88 . - p. 1569 - 1581. Sevinga, M.; Vrijenhoek, T.; Hesselink, J.W.; Barkema, H.W.; Groen, A.F. (2004) Effect of inbreeding on the incidence of retained placenta in Friesian horses Journal of Animal Science 82 (4). - p. 982 - 986. Siwek, M.Z.; Cornelissen, S.J.B.; Buitenhuis, A.J.; Nieuwland, M.G.B.; Bovenhuis, H.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Parmentier, H.K.; Poel, J.J. van der (2004) Quantitative trait loci for body weight in layers differ from quantitative to loci specific for antibody responses to sheep red blood cells Poultry Science 83 (6). - p. 853 - 859. Siwek, M.Z.; Buitenhuis, A.J.; Cornelissen, S.J.B.; Nieuwland, M.G.B.; Knol, E.F.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Parmentier, H.K.; Poel, J.J. van der (2006) Detection of QTL for innate: Non-specific antibody levels binding LPS and LTA in two independent populations of laying hens Developmental and Comparative Immunology 30 (7). - p. 659 - 666. Siwek, M.Z.; Cornelissen, S.J.B.; Nieuwland, M.G.B.; Buitenhuis, A.J.; Bovenhuis, H.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Vries-Reilingh, G.; Parmentier, H.K.; Poel, J.J. van der (2006) Corrections for: Detection of QTL for immune response to Sheep Red Blood Cells in laying hens Animal Genetics 37 (6). - p. 608. Soboleva, T.K.; Pleasants, A.B.; Rens, B.T.T.M. van; Lende, T. van der; Peterson, A.J. (2004) A dynamic model for ovulation rate reveals an effect of the estrogen receptor genotype on ovarian follicular development in the pig Journal of Animal Science 82 . - p. 2329 - 2332. Thompson, P.N.; Heesterbeek, J.A.P.; Arendonk, J.A.M. van (2006) Changes in disease gene frequency over time with differential genotype fitness and various control strategies Journal of Animal Science 84 (10). - p. 2629 - 2635. Tijhuis, M.J.; Wark, P.A.; Aarts, J.M.M.J.G.; Visker, M.H.P.W.; Nagengast, F.M.; Kok, F.J.; Kampman, E. (2005) GSTP1 and GSTA1 Polymorphisms interact with Cruciferous Vegetable Intake in Colorectal Adenoma Risk Cancer Epidemiology Biomarkers and Prevention 14 (12). - p. 2943 - 2951. Tijhuis, M.J.; Visker, M.H.P.W.; Aarts, J.M.M.J.G.; Peters, W.H.M.; Roelofs, H.M.J.; Camp, L. op den; Boerboom, A.M.J.F.; Rietjens, I.M.C.M.; Nagengast, F.M.; Kok, F.J.; Kampman, E. (2006) Glutathione S-transferase phenotypes in relation to genetic variation and fruit and vegetable consumption in an endoscopy-based population Carcinogenesis 27 . Vargas, B.; Arendonk, J.A.M. van (2004) Genetic comparison of breeding schemes based on semen importation and local breeding schemes: Framework and application to Costa Rica Journal of Dairy Science 87 (5). - p. 1496 - 1505. Viertlboeck, B.C.; Crooijmans, R.P.M.A.; Groenen, M.A.M.; Gobel, T.W. (2004) Chicken Ig-like receptor B2, a member of a multigene family, is mainly expressed on B lymphocytes, recruits both Src homology 2 domain containing protein tyrosine phosphatase (SHP)-1 and SHP-2, and inhibits proliferation Journal of Immunology 173 (12). - p. 7385 - 7393. 64 WIAS Midterm Review 2007 Animal Breeding and Genetics Viertlboeck, B.C.; Habermann, F.; Schmitt, R.; Groenen, M.A.M.; Pasquier, L. du; Göbel, T.W.F. (2005) The chicken leukocyte receptor complex: a highly diverse multigene family encoding at least five structurally distinct receptor types 1 Journal of Immunology 175 (1). - p. 385 - 393. Waaij, E.H. van der (2004) A resource allocation model describing consequences of artificial selection under metabolic stress Journal of Animal Science 82 (4). - p. 973 - 981. Waaij, E.H. van der; Holzhauer, M.; Ellen, E.D.; Kamphuis, C.; Jong, G. de (2005) Genetic parameters for claw disorders in Dutch dairy cattle and correlations with conformation traits Journal of Dairy Science 88 (10). - p. 3672 - 3678. Wallis, J.; Aerts, J.A.; Groenen, M.A.M.; Crooijmans, R.P.M.A.; Layman, D.; Graves, T.; Scheer, D.; Kremitzki, C.; Fedele, M.; Mudd, N. (2004) A physical map of the chicken genome Nature 432 (7018). - p. 761 - 764. Wijk, H.J. van; Arts, D.J.G.; Matthews, J.O.; Webster, M.; Ducro, B.J.; Knol, E.F. (2005) Genetic Parameters for carcass composition and pork quality estimated in a commercial production chain Journal of Animal Science 83 (2). - p. 324 - 333. Wijk, H.J. van; Dibbits, B.W.; Baron, E.E.; Brings, A.D.; Harlizius, B.; Groenen, M.A.M.; Knol, E.F.; Bovenhuis, H. (2006) Identification of quantitative trait loci for carcass composition and meat quality traits in a commercial finishing cross Journal of Animal Science 4 (84). - p. 789 - 799. Wit, J.J. de; Eck, J.H.; Crooijmans, R.P.M.A.; Pijpers, A. (2004) A serological survey for pathogens in old fancy chicken breeds in central and eastern part of The Netherlands Tijdschrift voor Diergeneeskunde 129 (10). - p. 324 - 327. Wong, G.K.; Liu, B.; Wang, J.; Crooijmans, R.P.M.A.; Poel, J.J. van der; Bovenhuis, H.; Groenen, M.A.M. (2004) A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms: International Chicken Polymorphisms Map Consortium Nature 432 (7018). - p. 717 - 722. Yue, G.H.; Ho, M.Y.; Orban, L.; Komen, J. (2004) Microsatellites within genes and ESTs of common carp and their applicability in silver crucian carp Aquaculture 234 (1-4). - p. 85 - 98. Zerehdaran, S.; Vereijken, A.L.J.; Arendonk, J.A.M. van; Waaij, E.H. van der (2004) Estimation of Genetic Parameters for Fat Deposition and Carcass Traits in Broilers Poultry Science 83 (4). - p. 521 - 525. Zerehdaran, S.; Vereijken, A.L.J.; Arendonk, J.A.M. van; Bovenhuis, H.; Waaij, E.H. van der (2005) Broiler breeding strategies using indirect carcass measurements Poultry Science 84 (8). - p. 1214 - 1221. Zerehdaran, S.; Vereijken, A.L.J.; Arendonk, J.A.M. van; Waaij, E.H. van der (2005) Effect of Age and Housing System on Genetic Parameters for Broiler Carcass Traits Poultry Science 84 (6). - p. 833 - 838. Zerehdaran, S.; Grevenhof, E.M. van; Waaij, E.H. van der; Bovenhuis, H. (2006) A Bi-variate mixture model analysis of body weight and ascites traits in broilers Poultry Science 85 (1). - p. 32 - 38. 65 WIAS Midterm Review 2007 Animal Breeding and Genetics Refereed book chapters Beekman, V.; Brom, F.W.A. (2005) Corporate social responsibility in a pluralist market. The European food market as an example In: Pluralism in Europe? / Vredenborg, P., Heuser, S., . - Erlangen : Societas Ethica, Proceedings (Full papers only) Arendonk, J.A.M. van; Bijma, P. (2005) Factors affecting commercial application of embryo technologies in dairy cattle in Europe - a modelling approach In: Annual conference of the International Embryo Transfer Society (IETS) 11-15 January 2003, Auckland, New Zealand. Arendonk, J.A.M. van (2005) Dairy cattle breeding in a changing environment In: XXXVII National Congress of Buiatrics, Teramo, Italy, 5-7 May 2005. Ask, B.; Waaij, E.H. van der; Bishop, S.C. (2006) Modeling immunocompetence development and population health for selection strategy optimisation In: 8th World Congress on Genetics Applied to Livestock Production, Belo Horizonte-MG, Brazil, August 13-18, 2006. - s.n., Beekman, V.; Brom, F.W.A. (2006) Corporate social responsibility in a pluralist market. The European food market as an example In: Paper for `Pluralism in Europe', Societas Ethica annual conference, Ljubljana, Slovenia, 25-29 August 2004. Bergsma, R.; Knol, E.F. (2006) Expected genetic gain using lactaion efficiency and its components in a breedin program in dam lines In: 57th annual meeting of the European Association for Animal Producion, Antalya, Turkey, 17 - 20 September, 2006. - Antalya, Turkey : Charo-Karisa, H.; Rezk, M.A.; Bovenhuis, H.; Komen, J. (2005) Effects of Rearing Conditions on Low-Temperature Tolerance of Nile Tilapia, Oreochromis niloticus, Juveniles In: Proceedings of the 6th international symposium on tilapia in aquaculture, Manila, Philippines, 12-16 September 2004. Ellen, E.D.; Muir, W.M.; Bijma, P. (2006) Increasing survival in layers using information on relatives In: 8th World Congress on Genetics Applied to Livestock Production, Belo Horizonte-MG, Brazil, August 13-18, 2006. - [s.n.] : [s.n.], Fessehaye, Y.; Rezk, M.A.; Bovenhuis, H.; Komen, J. (2005) Size dependent cannibalism in juvenile Nile Tilapia (Oreochromis niloticus) In: Proceedings of the 6th international symposium on tilapia in aquaculture, Manila, Philippines, 12-16 September 2004. Forabosco, F.; Groen, A.F.; Bozzi, R.; Arendonk, J.A.M. van; Filippini, F.; Boettcher, P.; Bijma, P. (2005) Longevity, type traits and production in Chianina beef cattle = Longevità, Caratteri morfologici e produttivi nella raza chianina In: Proceedings of the 4th World Italian Beef Congress, Italy, April 29th-May 1st. Forabosco, F.; Bozzi, R.; Filippini, F.; Boettcher, P.; Arendonk, J.A.M. van; Bijma, P. (2005) Comparison between models for genetic evaluation of sire longevity in Chianina beef cattle In: Proceedings of the 4th World Italian Beef Cattle Congress, Italy, April 29th - May 1st, 2005. - 66 WIAS Midterm Review 2007 Animal Breeding and Genetics Forabosco, F.; Bozzi, R.; Boettcher, P.; Filippini, F.; Bijma, P.; Arendonk, J.A.M. van (2005) Economic values for some biological variables in Chianina beef cows In: Proceedings of the 4th World Italian Beef Cattle Congress, Italy, April 29th - May 1st, 2005. Greef, K.H. de; Lauwere, C.C. de; Stafleu, F.; Meijboom, F.; Rooij, S.J.G. de; Brom, F.W.A.; Ploeg, J.D. van der (2006) Towards value based autonomy in livestock farming? In: Ethics and the Politics of Food. - Wageningen : Wageningen Academic Publishers, - p. 61 - 66. Groen, A.F. (2004) Advances in selection for functional traits In: Proceedings 11th World Holstein Friesian Conference, February 27th-March 2nd, Paris. Heuven, H.C.M.; Eckeveld, M.J.; Coster, N.B. (2006) Imprinted QTL on Sus Scrofa Chromosone 6 affect intramuscular fat percentage in Meishan-F2 pigs In: 8th World Congress on Genetics Applied to Livestock Production, Belo Horizonte-MG, Brazil, August 13-18, 2006. - [s.n.] : [s.n.], Kanis, E.; Pelt, M.L. van; Bonekamp, P.R.T; Knol, E.F. (2006) Is within-family variation in carcass weight og pigs heritable? In: 8th World Congress on Genetics Applied to Livestock Production, Belo Horizonte-MG, Brazil, August 13-18, 2006. - [S.l.] : [s.n.], Komen, J.; Bovenhuis, H.; Arendonk, J.A.M. van (2006) Consequences of reproductive characteristics for fish breeding schemes In: 8th World Congress on Genetics Applied to Livestock Production, Belo Horizonte-MG, Brazil, August 13-18, 2006. - [s.n.], Lende, T. van der; Rens, B.T.T.M. van (2004) Genetic aspects of prenatal survival in pigs In: Workshop Communications: ICAR: 15 th International Congress on Animal Reproduction, Porto Seguro, 812 August 2004. Lende, T. van der; Rens, B.T.T.M. van (2005) Causes, consequences and control of within-litter diversity in porcine prenatal development In: CRU seminar on reproductive biology, Uppsala, Sweden, 21 April 2005. Liinamo, A.E.; Waaij, E.H. van der (2005) Is a champion always the champion? Improving selection of breeding animals in working dogs In: Proceedings 4th International Working Dog Breeding Association conference,23-27 January 2005,Melbourne, Australia. Mulder, H.A.; Veerkamp, R.F.; Bijma, P. (2005) Optimizing Dairy Cattle Breeding Programs using International Genetic Evaluations In: Proceedings Interbull Meeting 2005, Uppsala,Sweden,June 2-4,Interbull Bulletin 33. Nauta, W.J.; Saatkamp, H.W.; Baars, T.; Roep, D. (2006) Breeding in organic farming: different strategies, different demands In: Proceedings of the Joint Organic Congress, Odense, 30-31 May 2006. - Odense : Joint Organic Congress, p. 2. Oliehoek, P.A.; Windig, J.J.; Bijma, P. (2006) Choice of relatedness estimator for conservation depends on population structure In: 8th World Congress on Genetics applied to Livestock production, August, 13-18, 2006, Belo Horizonte, MG, Brazil. - 67 WIAS Midterm Review 2007 Animal Breeding and Genetics Oliehoek, P.A.; Bijma, P. (2006) Effect of erroneous pedigree data on efficiency of methods to conserve of genetic diversity in small animal populations In: 57th annual meeting of the European Association for Animal Production, Antalya, Turkey, 17-20 September 2006. - book of abstracts 57th annual meeting of the European Association for Animal Producion . Pas, M.F.W. te; Hemert, S. van; Hulsegge, B.; Rebel, J.M.J.; Smits, M.A. (2006) Pathway analysis of intestinal microarray data for two chicken lines differing in response to salmonella enteritidis infection In: Statistical genomics and bioinformatics: 8th World Congress on Genetics Applied to Livestock Production, Belo Horizonte-MG, Brazil, August 13-18, 2006. - Statistical genomics and bioinformatics (23 23-17). Rutten, M.J.M.; Bovenhuis, H.; Komen, J.; Bijma, P. (2006) Mixed model methodology to infer whtether aggression In: Increases Due To Selection On Growth In Aquaculture Species. Star, L.S.; Ellen, E.D.; Uitdehaag, K.A.; Brom, F.W.A. (2006) Robustness of laying hens: an ethical approach In: Ethics and the politics of food. - Wageningen : Wageningen Academic Publishers, Stoop, W.M.; Bovenhuis, H.; Arendonk, J.A.M. van (2006) Genetic parameters of milk urea in relation to milk production traits In: 8th World Congress on Genetics Applied to Livestock Production, Belo Horizonte-MG, Brazil, August 13-18, 2006. - [s.n.], Verbeek, E.; Kanis, E.; Bett, R.C.; Kosgey, I.S. (2006) Breeding for litter size, lambing interval and disease resistance in sheep in Kenya In: Respondign to Challenges and Opportunities Trough the Development and Dissemination of Innovative Agricultural Technologies, Knowledge and Approaches, Nairobi, Kenya, 13 - 17 November, 2006. Kari,Nairobi,Kenya : Waaij, E.H. van der; Liinamo, A.E. (2005) Comparing breeding strategies to improve working dog performance In: Proceedings 4th International Working Dog Breeding Association conference,23-27 January 2005,Melbourne, Australia. Waaij, E.H. van der; Wilsson, E.; Liinamo, A.E. (2006) Genetic analysis of behavioral test results in German sheperd dogs and labrador retrievers In: 8th World Congress on Genetics Applied to Livestock Production, Belo Horizonte-MG, Brazil, August 13-18, 2006. - [S.l.] : [s.n.], Professional publications and products (incl. patents) Arendonk, J.A.M. van (2004) GMO is dood, lang leve de gentechniek In: Food Management. - Food Management 22 (6). - p. 26 - 29. Arendonk, J.A.M. van (2004) Milk genome Initiative van start in Wageningen VoedingsMagazine 17 (2). - p. 17 - 18. Arendonk, J.A.M. van (2005) Varkenshouderij moet fokken op 'gezond vlees' Nieuwe Oogst / Magazine Veehouderij 1 (4). - p. 3. Arendonk, J.A.M. van (2005) Milk genomics als basis voor product innovatie in de zuivelkeuken 's Gravenhage : STW, - p. 3. 68 WIAS Midterm Review 2007 Animal Breeding and Genetics Arendonk, J.A.M. van (2006) Scannen van de genenkaart : Johan van Arendonk: ''We moeten proefstieren blijven testen" Veeteelt 23 (6). - p. 50 - 51. Arendonk, J.A.M. van (2006) NVO combineert beste van DPS, DPST en PBI tot nieuwe totaalindex. DPS verdwijnt WUR Wageningen UR. - Veeteelt 23 (11). - p. 36 - 37. Arendonk, J.A.M. van (2006) De meegewogen kenmerken zijn slechts hulpmiddelen Koevisie: onafhankelijk maandblad voor de melkveehouderij 8 (1). - p. 16 - 17. Arendonk, J.A.M. van (2006) Markers, a new phenomenon Veepro Magazine 63 . - p. 4 - 6. Blonk, R.J.W.; Hong, Y.; Kamstra, A.; Schram, E.; Heul, J.W. van der (2005) Gonad Development of male Sole, S. solea (L.), in natural and culture conditions between March and June 2003 in relation to environmental factors IJmuiden : RIVO, (RIVO Report C080/05) - p. 44. Brom, F.W.A.; Bakker, H.C.M. de; Deblonde, M.K.; Graaff, R.P.M. de (2005) Food chain value communication In: Development of Ethical Bio-Technology Assessment Tools for Agriculture and Food Production / Beekman, V., . - Den Haag : LEI, - p. 62 - 86. Grevenhof, E.M. van; Ducro, B.J. (2006) Staart- en maneneczeem Phryso 2006 (juli). - p. 16 - 18. Grevenhof, E.M. van; Ducro, B.J. (2006) Staart- en maneneczeem Phryso 57 (aug). - p. 8 - 9. Hellinga, I.; Ducro, B.J. (2006) Verwantschapspercentage: een nieuw hulpmiddel bij de inteeltbestrijding Phryso 2006 (maart). - p. 18 - 21. Hemert, S. van; Hoekman, A.J.W.; Smith, M.A.; Rebel, J.M.J. (2006) Early host gene expression responses to a Salmonella infection in the intestine of chickens with different genetic background Comparative Biochemistry and Physiology 1 (3). - p. 292 - 299. Heuven, H.C.M.; Groenen, M.A.M.; Arendonk, J.A.M. van (2006) Imprinting effects for porcine reproductive traits on SSC2 Octrooinummer: P6008472EP, ingediend: 2006-05-01. Rens, B.T.T.M. van; Lende, T. van der (2004) Stille getuigen van een onbekend verleden Dier en arts 19 (6/7). - p. 210 - 213. Veldhuisen, J.P.; Bijma, P.; Dijkstra, J. (2006) Voeropname onder druk: verhogen productie zonder verslechtering negatieve energiebalans is lastig Veeteelt 23 (21). - p. 12 - 14. 69 WIAS Midterm Review 2007 Animal Breeding and Genetics Publications for the general public Arendonk, J.A.M. van (2005) Zoeken naar de ideale boterkoe De Volkskrant (2005-04-17). Arendonk, J.A.M. van (2005) Zo vader, zo zoon in de genetica BN De Stem (2005-08-13). Arendonk, J.A.M. van (2006) Justus von Liebig Preis voor Johan van Arendonk VoedingsMagazine 19 (4). - p. 6. Arendonk, J.A.M. van (2006) Genen zoeken voor melk op maat Stal en akker 2006 . - p. 5. Arendonk, J.A.M. van (2006) Van Arendonk: van vierkante melk uit een tank naar melk op maat Agrarisch Dagblad (2006-12-21). Ducro, B.J. (2004) De genetische achtergrond van osteochondrose: paard en... ... gezondheid In de Strengen 66 (8). - p. 48 - 49, 51. Ducro, B.J.; Cazemier, G. (2006) BLUP begrijpen IJslandse paarden 2006 (april). - p. 38 - 41. Grevenhof, E.M. van; Ducro, B.J. (2006) Omgevingsfactoren van invloed op staart- en maneneczeem : omgevingsfactoren zijn van invloed Het Nederlands Stamboek voor Tinkers . - p. 1 - 3. Grevenhof, E.M. van; Ducro, B.J. (2006) Staart- en maneneczeem is erfelijk Het Nederlands Stamboek voor Tinkers . - p. 3 - 5. 70 WIAS Midterm Review 2007 Animal Nutrition Animal Nutrition (ANU) 1. Reflection on the previous assessment The internal leadership of the Animal Nutrition group has changed with the retirement of the two previous chair-holders and the appointment of successor on 1 September 2005. As part of this leadership change, a new strategic plan has been developed and is currently being implemented. The mission of the chair group is similar to the previous mission: to optimise the nutrition of animals in order to produce safe and healthy food for human consumption and to safeguard the health and welfare of animals with minimisation of the impacts on the environment. However, within the mission, a focus on companion animal nutrition has been added: the optimisation of diets for companion animals to maintain health, welfare and longevity. The current strength in the area of applied research will be maintained while the group will place more emphasis on development of capabilities in more fundamental nutritional processes. To realise the mission our research group has played a leading role in the formation of collaborative research Centre for Animal Nutrition which brings together scientist in the field of Animal Nutrition within Wageningen University (ANU), he Animal Sciences Group in Lelystad and the chair group Animal Nutrition in Utrecht University. The Centre will be coordinated by the Animal Nutrition group at Wageningen University and will officially start on the 1st of January 2008. Fundamental research in animal nutrition will primarily (but not exclusively) be concentrated at Wageningen University, the more applied animal nutrition research at Lelystad while at Utrecht University a focus on clinical nutrition animal nutrition research will be maintained. Through the Centre, sufficient nutritional expertise will be maintained in key strategic areas, strategic focus between groups is coordinated (to minimise competition) and new research areas can be developed. The strategic research of the three groups within the Centre is focussed around three themes: nutrigenomics, biobased economy, and nutrition and health. Nutrigenomics has been added as a new area of research and to this end a new university position has been created which is funded by two groups within the Centre. Strategic collaborations have been identified and collaborations with the chair group Nutrition, Metabolism and Genomics (Prof M. Müller) of Wageningen University have been set up. The already excellent collaborations with the chair group microbiology are actively maintained. A large initiative to develop a collaborative nutrigenomics research platform with industry and other research providers has been started. Future feed technology research will concentrate on companion animal nutrition. Although the previous WIAS review indicated some scepticism towards the development of pet nutrition, this can be a fruitful area of research in light of the limited expertise available in Europe and the track record of the new chair in this field. In addition to a focus on pet foods, more fundamental aspects of feed technology have been initiated. The unique climate respiration chambers and the analytical facilities of the group have been identified as key facilities for the future and an investment strategy has been developed for equipment replacement. The analytical facilities of the group will become the central analytical facilities for the entire Centre to ensure optimal use and maintenance of expertise and equipment. 71 WIAS Midterm Review 2007 Animal Nutrition In line with the implementation of a strategic plan, specific areas of research focus have been abandoned. Among these are the traditional feed evaluation science, feed technology in relation to inactivation of antinutritional factors and research into endogenous losses. Finally, the Animal Nutrition group has been strengthened by the appointment of two new special professors (bijzonder hoogleraar) without budgetary consequences who provide a key link to industry and a marketing board. 2 Research input Table 2.1 Research staff Name and present title Full professors Prof. W. Hendriks Prof. M.W.A. Verstegen Prof. S. Tamminga Prof. B. Urlings Prof. L. den Hartog Dr. T. van der Poel Dr. W. Gerrits Dr. J. Dijkstra Dr. M. Bosch Dr. R. Kwakkel M. Bruining Dr. W. Pellikaan Dr B.A. Williams Dr. J. van den Borne C. Steendam W.F. Pellikaan J. Nolles J. Reijs B. Tas H.Z.H. Taweel W. Wieland H.J. Smit A.A. Awati J.J.G.C. van den Borne B.J. Suarez A. van Knegsel S. Abrahamse O. Perez G. Bosch Y. Wen Y. Lan S. Kondombo T.T.T. Huynh E. Goromela Period of appointment Start End Jul 2005 Mar 2006 Jan 2005 Mar 2005 2006 Sep Feb 1984 Apr 2003 Apr 1996 Apr 2004 June 1986 Sep 2000 Apr 2004 May 1984 Nov 2004 Sep 2007 Mar 2005 Apr 2006 Oct 2007 Dec Jun Mar May May Sept Nov April May Mar May Jun Aug Jul Feb Feb Mar Jun Apr Jan 1994 1996 2000 2000 2000 2002 2000 2001 2001 2002 2002 2003 2003 2004 2005 2000 2000 2001 2001 2005 Fte* 1.0 1.0 1.0 0.0 0.0 1.0 0.8 1.0 0.6 1.0 1.0 0.5 1.0 0.8 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 Col Associate professors Assistant professor Other tenured staff Non-tenured staff Employed PhD students Sep Jan Oct Apr Sep Nov Apr Apr Nov Nov Oct 2004 2006 2007 2005 2004 2004 2005 2005 2006 2006 2007 HAP BFS, RSO CWE CWE NEM CWE ADP MIB MIB Sandwich PhD Mar Nov Mar 2004 2005 2005 ADP 72 WIAS Midterm Review 2007 Animal Nutrition Guest PhD students A. Azarfar K.A. Mai L. D. Phung T. Quang M. van Krimpen J. Martin-Tereso Feb May Oct Jan Feb Nov 2003 2003 2003 2004 2004 2006 Jan Jun Oct 2006 2007 2006 1.0 1.0 1.0 1.0 1.0 1.0 H. Verdonk 1998 Jan 2006 1.0 A. Bannink Dec 1995 Nov 2007 1.0 H. Hissink Mar 1997 1.0 S.B. Shim 1998 Apr 2005 1.0 J. Gosselink Jan 2000 Jan 2004 1.0 J.A. de Leeuw Mar 2000 Jun 2004 1.0 C. van der PeetJune 2000 Jun 2004 1.0 ADP Schwering APS R. Eits June 2000 Jun 2004 1.0 APS E. Hambrecht Nov 2000 Nov 2004 1.0 APS A. Kies Nov 2006 Jun 2005 1.0 H. Enting Jun 2001 Jun 2005 1.0 M. Gas Jan 2002 Jan 2006 1.0 HAP V. Halas May 2002 Jun 2004 1.0 K. Ange-van Heugten Aug 2003 1.0 A. Gutierrez Feb 2005 1.0 C. van Wagenberg Mar 2005 1.0 G. Wong Nov 2005 1.0 * fte regards the total appointment; tenured staff has approximately 40% available for research External PhD students • • It should be noted that during 2006 one of the senior staff members has been on sick leave for an extended period of time. In 2006 there was a decrease in tenured staff as a result of the retirement of two professors and the appointment of one new one. Table 2.2 Research input in fte by staff, postdocs and PhD students Average 1999-2003 Tenured staff 2.0 2.1 1.8 2.0 Postdocs and other non-tenured staff 0.2 0.8 0.8 1.5 AIO/OIOs 2.9 2.3 1.5 3.7 Other PhD students * 4.2 3.8 3.6 2.1 Total 9.3 9.0 7.7 9.3 * research time of external and sandwich PhD students is counted only when spent in Wageningen 2004 2005 2006 • • The NWO funded research shows a significant decrease. We are currently developing a number (one already submitted, 2 under development) of new research initiatives focussing on more “fundamental” funding organisations such as STW and ALW programmes within NWO (Dutch organisation for fundamental research). In 2007, three large collaborative projects involving a total of 6 PhD students (not shown in tables) have been obtained (HealthyHay, REDNEX and “De Wittere Motor”) and the group is actively involved in development of an EU research proposal for 2008. 73 WIAS Midterm Review 2007 Animal Nutrition Table 2.3 Research funding in fte by staff, postdocs and PhD students 2004 University funded NWO funded Contract funded Total 2.6 1.0 5.7 9.3 2005 2.8 0.8 5.5 9.0 2006 2.5 0.2 5.1 7.8 Average 1999-2003 3.2 1.0 5.1 9.3 3 Overview of the results • In general, the quantity of the publications has increased from 44 to 60 per year with a significant increase in the peer reviewed journal publications from 26.1 to 42.3 (Table 3.1). The average (trend corrected) impact factor of the peer reviewed journal publications of the group in 2004, 2005 and 2006 (as determined using 2006 impact factors) were variable (1.8, 1.4 and 2.1, respectively). Compared to the previous assessment the average number of PhD theses per year has increase significantly from 4.4 to 8. The strategy of the group is to maintain the quantitative aspects of the research output and focus on increasing the quality of the research through increased publications in higher impact journals. The productivity of the group has increased significantly and is among the highest within WIAS. In comparison to the previous period, there has been a large increase in all the productivity variables measured (Table 3.2). The ambition of the group is to maintain the level of productivity at the 2006 levels. Further increases in productivity will be difficult in light of the current workload of the staff. Already two additional staff members have been appointed in 2007 to mitigate the latter problem. In addition to Table 3.1, the Animal Nutrition group annually organises 3 post-graduate two day courses in ruminant, pig and poultry nutrition and a four-day international feed evaluation science course. Average 1999-2003 4.4 26.2 1.0 5.2 0.4 9.6 1.6 44.0 8.2 0.4 • • • Table 3.1 Publication output 2004 PhD theses Academic publications in refereed journals in other journals book chapters monographs and edited books proceedings (full papers only) scientific reports total academic publications Professional publications and products Publications for the general public Table 3.2 Number of publications per fte research input Per fte tenured staff Refereed journals Academic publications Per fte total research input Refereed journals Academic publications 2004 21.5 27.7 4.5 5.8 2005 20.5 28.6 4.8 6.7 2006 22.7 35.1 5.4 8.3 Average 1999-2003 13.1 22.0 2.8 4.7 10 42 0 2 0 7 3 54 8 0 2005 8 43 0 11 1 5 0 60 2 0 2006 6 42 0 12 2 4 5 65 2 0 74 WIAS Midterm Review 2007 Animal Nutrition 4 Analysis, perspectives and expectations of the Chair group Strengths • • • • • • • • • • • • • • • Threats • • • • • • • • • • • Staff: the generation of new concepts and research ideas. Certain unique facilities such as respiration chambers, extruder, in vitro technique, laboratory, etc. Strong research focus and research project development attitude. International network and cooperation. Contact with industry (extensive graduate network in industry). “Aging” equipment and lack of possibilities for replacement. Publication of original research by individual researchers. Research project acquisition reliant on a few researchers. Insufficient number of technical staff in specific areas eg laboratory. Insufficient fundamental nutrition projects eg NWO. Conducting animal nutrition research in the –omics era. Development of research proposals for the EU FP 7. Development of a Centre in animal nutrigenomics in the Netherlands in combination with various groups in WUR. Development of “tailor made” animal research facilities within the University relocation plans for the Department. Becoming the recognised companion animal nutrition research group in Europe. Reduction in tenured staff impacting on quantity and quality of the research output. Serious lack of career prospect for young talented researchers within the University. New chair being viewed as a “companion animal researcher”. Increasing workload (often related to overhead) of researchers. Increase in bureaucracy and “meeting” mentality. Lack of support for the Centre within, and by the University. A refocus of research objectives has been effectuated in 2005-2006 and is currently being implemented. Combination of skills residing within a number of chair groups (Breeding, Physiology and Nutrition) to conduct research in the –omics era/area. Increase the scientific staff and appointed PhD students. Implement the developed strategy. Increase the quality of the science within impact on the quantity. Weaknesses Opportunities Analysis Goals Strategy 75 WIAS Midterm Review 2007 Animal Nutrition Annex: List of publications 2004-2006 Publications 2004-2006 PhD theses Awati, A.A. (2005) Prebiotics in piglet nutrition? Fermentation kinetics along the GI tract Wageningen Universiteit. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Williams, Dr B.A.; Bosch, Dr ir M.W.. - Wageningen : s.n., - p. 143. Borne, J.J.G.C. van den (2006) Nutrient synchrony in preruminant calves WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Gerrits, Dr ir W.J.J.. [S.l.] : [s.n.], - p. 197. Eits, R.M. (2004) Modelling responses of broiler chickens to dietary balanced protein WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A.; Hartog, Prof.dr.ir. L.A. den, copromotor(en): Kwakkel, Dr ir R.P.. - [S.I.] : [s.n.], - p. 163. Enting, H. (2005) Effect of low-density diets on broiler breeder and offspring performance Wageningen Universiteit. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Aar, P.J. van de. - s.l. : s.n., Gas, M. (2006) Consequences of different strategies of free amino acid supplementation to dietary proteins for physiological utillization WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Schreurs, Dr V.V.A.M.; Bujko, Dr. J.. - s.n. : s.n., - p. 150. Gosselink, J.M.J. (2004) Alternatives for forage evaluation in ruminants Wageningen Universiteit. Promotor(en): Tamminga, Prof dr ir S., co-promotor(en): Dulphy, J.P.; Crone, J.W.. [S.I.] : [s.n.], Halas, V. (2004) Dietary influences on nutrient partitioning and anatomical body composition of growing pigs; modelling and experimental approaches Wageningen Universiteit. Promotor(en): Verstegen, Prof dr ir M.W.A.; Babinszky, L., co-promotor(en): Dijkstra, Dr ir J.; Gerrits, Dr ir W.J.J.. - [S.I.] : [s.n.], - p. 217. Hambrecht, E. (2004) Critical pre- and postslaughter factors in relation to pork quality WUR Wageningen UR. Promotor(en): Hartog, Prof.dr.ir. L.A. den; Verstegen, Prof dr ir M.W.A., copromotor(en): Eissen, J.J.. - [S.I.] : [s.n.], - p. 152. Huynh Thi Thanh Thuy, -- (2005) Heat stress in growing pigs WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A.; Kemp, Prof dr ir B., co-promotor(en): Aarnink, Dr.ir. A.J.A.. Kies, A.K. (2005) Phytase studies in pigs and poultry: effect on protein digestion and energy utilization WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Gerrits, Dr ir W.J.J.. - s.l. : s.n., - p. 148. 76 WIAS Midterm Review 2007 Animal Nutrition Kondombo, S.R. (2005) Improvement of village chicken production in a mixed (chicken-ram) farming system in Burkina Faso WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A.; Nianogo, A.J., co-promotor(en): Kwakkel, Dr ir R.P.; Slingerland, Dr ir M.A.. - Wageningen : - p. 200. Lan, Y. (2004) Gastrointestinal Health Benefits of Soy Water-soluble Carbohydrates in Young Broiler Chickens WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A.; Tamminga, Prof dr ir S.; Erdi, Prof dr G., co-promotor(en): Williams, Dr B.A.. - [S.I.] : [s.n.], - p. 265. Le Dinh Phung, -- (2006) Odor from pig production: its relation to diet WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Aarnink, Dr.ir. A.J.A.; Ogink, Dr ir N.W.M.. - [S.l.] : [s.n.], - p. 206. Leeuw, J.A. de (2004) Stimulation of behavioural and nutritional satiety in sows Wageningen University. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Jongbloed, Dr ir A.W.; Spoolder, Dr. ir. H.A.M.. - [S.I.] : [s.n.], - p. 168. Nolles, J.A. (2006) Postprandial fate of amino acids: adaptation to molecular forms WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Schreurs, Dr V.V.A.M.. S.l. : s.n., - p. 120. Peet-Schwering, C.M.C. van der (2004) Long-term performance and behavior of sows fed high levels of non-starch polysaccharides WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A.; Kemp, Prof dr ir B., co-promotor(en): Hartog, Prof.dr.ir. L.A. den. - [S.I.] : [s.n.], - p. 141. Pellikaan, W.F. (2004) Passage of 13C-labelled feed components through the digestive tract of dairy cows WUR Wageningen UR. Promotor(en): Tamminga, Prof dr ir S., co-promotor(en): Dijkstra, Dr ir J.; Boer, Dr ir H.. - [S.I.] : [s.n.], - p. 188. Shim, S.B. (2005) Effects of prebiotics, probiotics and synbiotics in the diet of young pigs Wageningen Universiteit. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Verdonk, Ir J.M.A.J.. s.l. : s.n., - p. 178. Smit, H.J. (2005) Perennial ryegrass for dairy cows: effects of cultivar on herbage intake during grazing Wageningen Universiteit. Promotor(en): Tamminga, Prof dr ir S., co-promotor(en): Elgersma, Dr ir A.. Wageningen : Smit, - p. 138. Suárez, B.J. (2006) Rumen development in veal (preruminant) calves WUR Wageningen UR. Promotor(en): Tamminga, Prof dr ir S., co-promotor(en): Gerrits, Dr ir W.J.J.; Dijkstra, Dr ir J.. - [S.l.] : [s.n.], - p. 174. Tas, B.M. (2005) Perennial ryegrass for dairy cows: Intake, milk production and nitrogen utilization WUR Wageningen UR. Promotor(en): Tamminga, Prof dr ir S., co-promotor(en): Dijkstra, Dr ir J.; Elgersma, Dr ir A.. - Wageningen : Tas, - p. 132. 77 WIAS Midterm Review 2007 Animal Nutrition Taweel, H.Z. (2004) Perennial ryegrass for dairy cows: Grazing behaviour, intake, rumen function and performance Wageningen Universiteit. Promotor(en): Tamminga, Prof dr ir S., co-promotor(en): Dijkstra, Dr ir J.; Elgersma, Dr ir A.. - [S.l.] : [s.n.], - p. 156. Verdonk, J.M.A.J. (2006) Nutritional strategy affects gut wall integrity in weaned piglets Wageningen Universiteit. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Huisman, J.. - [S.l. ] : [s.n.], - p. 153. Wieland, W.H. (2004) From phage display to plant expression: Fulfilling prerequisites for chicken oral immunotherapy against coccidiosis Wageningen Universiteit. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Schots, Dr ir A.; Orzaéz Calatayud, Dr ir D.V.. - Wageningen : [s.n.], - p. 132. Scientific articles in refereed journals Aarnink, A.J.A.; Le Dinh Phung, --; Ogink, N.W.M.; Becker, P.M.; Verstegen, M.W.A. (2005) Odour from animal production facilities: its relationship to diet Nutrition Research Reviews 18 (1). - p. 3 - 30. Awati, A.A.; Williams, B.A.; Bosch, M.W.; Miller, B.; Haverson, K.; Patel, D.; Verstegen, M.W.A. (2004) Effect of different environmental conditions on fermentation end-products in colon of suckling piglets Reproduction Nutrition Development 44 (Suppl. 1). - p. S71 - S72. Awati, A.A.; Konstantinov, S.R.; Williams, B.A.; Akkermans, A.D.L.; Bosch, M.W.; Smidt, H.; Verstegen, M.W.A. (2005) Effect of substrate adaptation on the microbial fermentation and microbial composition of faecal microbiota of weaning piglets studied in vitro Journal of the Science of Food and Agriculture 85 (10). - p. 1765 - 1772. Awati, A.; Williams, B.A.; Bosch, M.W.; Verstegen, M.W.A. (2006) Dietary carbohydrates with different rates of fermentation affect fermentation end-product profiles in different sites of gastro-intestinal tract of weaning piglet Animal Science 82 (6). - p. 837 - 843. Awati, A.; Bosch, M.W.; Tagliapietra, F.; Williams, B.A.; Verstegen, M.W.A. (2006) Difference in in vitro fermentability of four carbohydrates and two diets, using ileal and faecal inocula from unweaned piglets Journal of the Science of Food and Agriculture 86 (4). - p. 573 - 582. Awati, A.; Williams, B.A.; Bosch, M.W.; Gerrits, W.J.J.; Verstegen, M.W.A. (2006) Effect of inclusion of fermentable carbohydrates in the diet on fermentation end-product profile in feces of weanling piglets1 Journal of Animal Science 84 (8). - p. 2133 - 2140. Awati, A.; Williams, B.A.; Bosch, M.W.; Li, Y.C.; Verstegen, M.W.A. (2006) Use of the in vitro cumulative gas production technique for pigs: an examination of alterations in fermentation products and substrate losses at various time points1 Journal of Animal Science 84 (5). - p. 1110 - 1118. Bannink, A.; Kogut, J.; Dijkstra, J.; France, J.; Kebreab, E.; Vuuren, A.M. van; Tamminga, S. (2006) Estimation of the stoichiometry of volatile fatty acid production in the rumen of lactating cows Journal of Theoretical Biology 238 (1). - p. 36 - 51. 78 WIAS Midterm Review 2007 Animal Nutrition Bannink, A.; Dijkstra, J.; Koopmans, S.J.; Mroz, Z. (2006) Physiology, regulation and multifunctional activity of the gut wall: a rationale for multicompartmental modelling Nutrition Research Reviews 19 (2). - p. 227 - 253. Bauer, E.; Williams, B.A.; Bosch, M.W.; Voigt, C.; Mosenthin, R.; Verstegen, M.W.A. (2004) Differences in microbial activity of digesta from three sections of the porcine large intestine according to in vitro fermentation of carbohydrate-rich substrates Journal of the Science of Food and Agriculture 84 (15). - p. 2097 - 2104. Bauer, E.; Williams, B.A.; Smidt, H.; Verstegen, M.W.A.; Mosenthin, R. (2006) Influence of the gastrointestinal microbiota on development of the immune system in young animals Current Issues in Intestinal Microbiology 7 (1). - p. 35 - 52. Bauer, E.; Williams, B.A.; Smidt, H.; Mosenthin, R.; Verstegen, M.W.A. (2006) Influence of dietary components on development of microbiota in single-stomached species Nutrition Research Reviews 19 (1). - p. 63 - 78. Behera, U.K.; Kebreab, E.; Dijkstra, J.; Assis, A.G.; France, J. (2005) Simulation of milk production by dairy cows fed sugarcane top-based diets with locally available supplements under Indian condition Journal of Agricultural Science 143 (2-3). - p. 217 - 229. Bell, K.M.; Pearce, P.D.; Ugarte, C.E.; Hendriks, W.H. (2006) Preliminary Investigation into the Absorption of Genistein and Daidzein by Domestic Cats (Felis catus)1-3 Journal of Nutrition 136 . - p. 2004S - 2006S. Bell, K.M.; Rutherfurd, S.M.; Hendriks, W.H. (2006) The isoflavone content of commercially-available feline diets in New Zealand New Zealand Veterinary Journal 54 (3). - p. 103 - 108. Bikker, P.; Dirkzwager, A.; Fledderus, J.; Trevisi, P.; Le Huërou-Luron, I.; Lallès, J.P.; Awati, A. (2006) The effect of dietary protein and fermentable carbohydrates levels on growth performance and intestinal characteristics in newly weaned piglets Journal of Animal Science 84 . - p. 3337 - 3345. Bolhuis, J.E.; Schouten, W.G.P.; Leeuw, J.A. de; Schrama, J.W.; Wiegant, V.M. (2004) Individual coping characteristics, rearing conditions and behavioural flexibility in pigs Behavioural Brain Research 152 . - p. 351 - 360. Borne, J.J.G.C. van den; Verdonk, J.M.A.J.; Schrama, J.W.; Gerrits, W.J.J. (2006) Reviewing the low efficiency of protein utilization in heavy preruminant calves - a reductionist approach Reproduction Nutrition Development 46 . - p. 121 - 137. Borne, J.J.G.C. van den; Verstegen, M.W.A.; Alferink, S.J.J.; Ass, F.H.M. van; Gerrits, W.J.J. (2006) Synchronizing the Availability of Amino Acids and Glucose Decreases Fat Retention in Heavy Preruminant Calves Journal of Nutrition 136 (8). - p. 2181 - 2187. Borne, J.J.G.C. van den; Verstegen, M.W.A.; Alferink, S.J.J.; Giebels, R.M.M.; Gerrits, W.J.J. (2006) Effects of Feeding Frequency and Feeding Level on Nutrient Utilization in Heavy Preruminant Calves Journal of Dairy Science 89 (9). - p. 3578 - 3586. Bruinenberg, M.H.; Valk, H.; Struik, P.C.; Vuuren, A.M. van (2004) Fermentation and degradation in the rumen of dairy cows fed on diets consisting of silage from an intensively managed sward and silages from semi-natural grassland Journal of Agricultural Science 142 (1). - p. 79 - 88. 79 WIAS Midterm Review 2007 Animal Nutrition Calabrò, S.; Williams, B.A.; Piccolo, V.; Infascelli, F.; Tamminga, S. (2004) A comparison between buffalo (Bubalus bubalis) and cow (Bos taurus) rumen fluids in terms of the in vitro fermentation characteristics of three fibrous feedstuffs Journal of the Science of Food and Agriculture 84 (7). - p. 645 - 652. Calabrò, S.; López, S.; Piccolo, V.; Dijkstra, J.; Dhanoa, M.S.; France, J. (2005) Comparative analysis of gas production profiles obtained with buffalo and sheep ruminal fluid as the source of inoculum Animal Feed Science and Technology 123-124 (1). - p. 51 - 65. Collao-Saenz, E.A.; Dijkstra, J.; Aguiar Paiva, P.C.; Bannink, A.; Arcuri, P.B.; Teixera, J.C.; Perez, J.R.O.; David, F.M. (2005) Simulation model for particle dynamics in rumen of cattle fed sugarcane diet Scienta Agricola 62 (2). - p. 102 - 110. Cottam, Y.; Merton, D.V.; Hendriks, W.H. (2006) Nutrient composition of the diet of parent-raised kakapo nestlings Notornis 53 (1). - p. 90 - 99. Dhanoa, M.S.; France, J.; Crompton, L.A.; Mauricio, R.M.; Kebreab, E.; Mills, J.A.N.; Sanderson, R.; Dijkstra, J.; Lopez, S. (2004) Technical note: a proposed method to determine the extent of degradation of a feed in the rumen from the degradation profile obtained with the in vitro gas production technique using feces as the inoculum Journal of Animal Science 82 (3). - p. 733 - 746. Dijkstra, J.; Kebreab, E.; Bannink, A.; France, J.; Lopez, S. (2005) Application of the gas production technique to feed evaluation systems for ruminants Animal Feed Science and Technology 123-124 (1). - p. 561 - 578. Eits, R.M.; Giesen, G.W.J.; Kwakkel, R.P.; Verstegen, M.W.A.; Hartog, L.A. den (2005) Dietary balanced protein in broiler chickens. 2. An economic analysis British Poultry Science 46 (3). - p. 310 - 317. Eits, R.M.; Kwakkel, R.P.; Verstegen, M.W.A.; Hartog, L.A. den (2005) Dietary balanced protein in broiler chickens. 1. A flexible and practical tool to predict dose-response curves British Poultry Science 46 (3). - p. 300 - 309. Elgersma, A.; Ellen, G.; Horst, H. van der; Boer, H.; Dekker, P.R.; Tamminga, S. (2004) Quick changes in milk fat composition of cows after transition from fresh grass to a silage diet Animal Feed Science and Technology 117 (1-2). - p. 13 - 27. Elgersma, A.; Tamminga, S.; Ellen, G. (2006) Modifying milk composition through forage Animal Feed Science and Technology 131 (3-4). - p. 207 - 225. France, J.; Lopez, S.; Kebreab, E.; Bannink, A.; Dhanoa, M.S.; Dijkstra, J. (2005) A general compartmental model for interpreting gas production profiles Animal Feed Science and Technology 123-124 (1). - p. 473 - 485. Geesink, G.H.; Buren, R.G.C. van; Savenije, B.; Verstegen, M.W.A.; Ducro, B.J.; Palen, J.G.P. van der; Hemke, G. (2004) Short-term feeding strategies and pork quality Meat Science 67 (1). - p. 1 - 6. Goromela, E.H.; Kwakkel, R.P.; Verstegen, M.W.A.; Katule, A.M. (2006) Strategies to optimize the use of scavengeable feed resource base by smallholders in traditional poultry production systems in Africa: a review African Journal of Agricultural Research 1 (4). - p. 91 - 100. 80 WIAS Midterm Review 2007 Animal Nutrition Gosselink, J.M.J.; Dulphy, J.P.; Tamminga, S.; Cone, J.W. (2004) Comparison of the in situ technique and the gas production technique in mimicking rumen dry matter digestion Journal of Animal and Feed Sciences 13 (suppl. 1). - p. 79 - 82. Gosselink, J.M.J.; Dulphy, J.P.; Poncet, C.; Tamminga, S.; Cone, J.W. (2004) A comparison of in situ and in vitro techniques to predict in vivo fermentable organic matter of forages NJAS Wageningen Journal of Life Sciences 52 (1). - p. 29 - 45. Gosselink, J.M.J.; Dulphy, J.P.; Poncet, C.; Jailler, M.; Tamminga, S.; Cone, J.W. (2004) Prediction of forage digestibility in ruminants using in situ and in vitro techniques Animal Feed Science and Technology 115 (3-4). - p. 227 - 246. Gosselink, J.M.J.; Dulphy, J.P.; Poncet, C.; Aufrère, J.; Tamminga, S.; Cone, J.W. (2004) Rumen escape nitrogen from forages in sheep: comparison of in situ and in vitro techniques using in vivo data Animal Feed Science and Technology 116 (1-2). - p. 35 - 51. Gregorini, P.; Tamminga, S.; Gunther, S.A. (2006) Review: Behavior and daily grazing patterns of cattle Professional Animal Scientist 22 . - p. 201 - 209. Guo, F.; Williams, B.A.; Kwakkel, R.P.; Li, H.S.; Li, X.P.; Luo, J.Y.; Li, W.K.; Verstegen, M.W.A. (2004) Effects of mushroom and herb polysaccharides, as alternative for an antibiotic, on the cecal microbial ecosystem in broiler chickens Poultry Science 83 . - p. 175 - 182. Guo, F.C.; Kwakkel, R.P.; Soede, J.; Williams, B.A.; Verstegen, M.W.A. (2004) Effect of a Chinese herb medicine formulation, as an alternative for antibiotics, on performance of broilers British Poultry Science 45 (6). - p. 793 - 797. Guo, F.C.; Kwakkel, R.P.; Williams, B.A.; Parmentier, H.K.; Li, W.K.; Yang, Z.Q.; Verstegen, M.W.A. (2004) Effects of Mushroom and Herb Polysaccharides on Cellular and Humoral Immune Responses of Eimeria tenellaInfected Chickens Poultry Science 83 (7). - p. 1124 - 1132. Guo, F.C.; Kwakkel, R.P.; Williams, B.A.; Li, W.K.; Li, H.S.; Luo, J.Y.; Li, X.P.; Wei, Y.X.; Yan, Z.T.; Verstegen, M.W.A. (2004) Effects of mushroom and herb polysaccarides, as alternatives for an antibiotic, on growth performance of broilers British Poultry Science 45 (5). - p. 684 - 694. Guo, F.C.; Kwakkel, R.P.; Williams, B.A.; Suo, X.; Li, W.K.; Verstegen, M.W.A. (2005) Coccidiosis Immunization: Effects of Mushroom and Herb Polysaccharides on Immune Responses of Chickens Infected with Eimeria Tenella Avian Diseases 49 (1). - p. 70 - 73. Halas, V.; Dijkstra, J.; Babinszky, L.; Verstegen, M.W.A.; Gerrits, W.J.J. (2004) Modelling of nutrient partitioning in growing pigs to predict their anatomical body composition. 1. Model description British Journal of Nutrition 92 (4). - p. 707 - 723. Halas, V.; Dijkstra, J.; Babinszky, L.; Verstegen, M.W.A.; Gerrits, W.J.J. (2004) Modelling of nutrient partitioning in growing pigs to predict their anatomical body composition. 2. Model evaluation British Journal of Nutrition 92 (4). - p. 725 - 734. 81 WIAS Midterm Review 2007 Animal Nutrition Hambrecht, E.; Eissen, J.J.; Klein, W.J.H.; Ducro, B.J.; Smits, C.H.M.; Verstegen, M.W.A.; Hartog, L.A. den (2004) Rapid chilling cannot prevent inferior pork quality caused by high preslaughter stress Journal of Animal Science 82 (2). - p. 551 - 556. Hambrecht, E.; Eissen, J.J.; Nooijen, R.I.J.; Ducro, B.J.; Smits, C.H.M.; Hartog, L.A. den; Verstegen, M.W.A. (2004) Preslaughter stress and muscle energy largely determine pork quality at two commercial processing plants Journal of Animal Science 82 . - p. 1401 - 1409. Hambrecht, E.; Eissen, J.J.; Newman, D.J.; Smits, C.H.M.; Hartog, L.A. den (2005) Negative effects of stress immediately before slaughter on pork quality aggravated by suboptimal transport and lairage conditions Journal of Animal Science 83 (2). - p. 440 - 448. Hambrecht, E.; Eissen, J.J.; Newman, D.J.; Smits, C.H.M.; Verstegen, M.W.A.; Hartog, L.A. den (2005) Preslaughter handling effects on pork quality and glycolytic potential in two muscles differing in fiber type composition Journal of Animal Science 83 (4). - p. 900 - 907. Hendriks, W.H.; Cottam, Y.H.; Thomas, D.V. (2006) The effect of storage on the nutritional quality of meat and bone meal Animal Feed Science and Technology 127 (1-2). - p. 151 - 160. Heres, L.; Urlings, B.A.P.; Wagenaar, J.A.; Jong, M.C.M. de (2004) Transmission of Salmonella between broiler chickens fed with fermented liquid feed Epidemiology and Infection 132 (1). - p. 107 - 116. Heres, L.; Engel, B.; Urlings, B.A.P.; Wagenaar, J.A.; Knapen, F. van (2004) Effect of acidified feed on suscebtibility of broiler chickens to intestinal infection by Campylobacter and Salmonella Veterinary Microbiology 99 (3-4). - p. 259 - 267. Huynh Thi Thanh Thuy, --; Aarnink, A.J.A.; Spoolder, H.A.M.; Verstegen, M.W.A.; Kemp, B. (2004) Effects of floor cooling during high ambient temperatures on the lying behavior and productivity of growing finishing pigs Transactions of the ASAE 47 (5). - p. 1773 - 1782. Huynh Thi Thanh Thuy, --; Aarnink, A.J.A.; Gerrits, W.J.J.; Heetkamp, M.J.W.; Canh, T.T.; Spoolder, H.A.M.; Kemp, B.; Verstegen, M.W.A. (2005) Thermal behaviour of growing pigs in response to high temperature and humidity Applied Animal Behaviour Science 91 (1-2). - p. 1 - 16. Huynh Thi Thanh Thuy, --; Aarnink, A.J.A.; Verstegen, M.W.A.; Gerrits, W.J.J.; Heetkamp, M.J.W.; Kemp, B.; Canh, T.T. (2005) Effects of increasing temperatures on physiological changes in pigs at different relative humidities Journal of Animal Science 83 (6). - p. 1385 - 1396. Ivanova-Peneva, S.G.; Aarnink, A.J.A.; Verstegen, M.W.A. (2006) Ammonia and Mineral Losses on Dutch Organic Farms with Pregnant Sows Biosystems Engineering 93 (2). - p. 221 - 235. Jong, I.C. de; Enting, H.; Voorst, A. van; Blokhuis, H.J. (2005) Do Low-Density Diets Improve Broiler Breeder Welfare During Rearing and Laying. Poultry Science 84 (2). - p. 194 - 203. 82 WIAS Midterm Review 2007 Animal Nutrition Kebreab, E.; Mills, J.A.N.; Crompton, L.A.; Bannink, A.; Dijkstra, J.; Gerrits, W.J.J.; France, J. (2004) An integrated mathematical model to evaluate nutrient partition in dairy cattle between the animal and its environment Animal Feed Science and Technology 112 (1-4). - p. 131 - 154. Kies, A.K.; Gerrits, W.J.J.; Schrama, J.W.; Heetkamp, M.J.W.; Linden, K.L. van der; Zandstra, T.; Verstegen, M.W.A. (2005) Mineral absorption and excretion as affected by microbial phytase and their effect on energy metabolism in young piglets Journal of Nutrition 135 (5). - p. 1131 - 1138. Kies, A.K.; Jonge, L.H. de; Kemme, P.A.; Jongbloed, A.W. (2006) Interaction between Protein, Phytate, and Microbial Phytase. In Vitro Studies Journal of Agricultural and Food Chemistry 54 (5). - p. 1753 - 1758. Knegsel, A.T.M. van; Brand, H. van den; Dijkstra, J.; Tamminga, S.; Kemp, B. (2005) Effect of dietary energy source on energy balance, production, metabolic disorders and reproduction in lactating dairy cattle Reproduction Nutrition Development 45 . - p. 665 - 688. Konstantinov, S.R.; Favier, C.F.; Zhu Wei-Yun, --; Williams, B.A.; Kluss, J.; Souffrant, W.-B.; Vos, W.M. de; Akkermans, A.D.L.; Smidt, H. (2004) Microbial diversity studies of the porcine gastrointestinal ecosystem during weaning transition Animal Research 53 (4). - p. 317 - 324. Konstantinov, S.R.; Awati, A.A.; Smidt, H.; Williams, B.A.; Akkermans, A.D.L.; Vos, W.M. de (2004) Specific response of a novel and abundant Lactobacillus amylovorus-like phylotype to dietary prebiotics in the guts of weaning piglets Applied and Environmental Microbiology 70 (7). - p. 3821 - 3830. Konstantinov, S.R.; Awati, A.A.; Williams, B.A.; Miller, B.G.; Jones, P.; Stokes, C.R.; Akkermans, A.D.L.; Smidt, H.; Vos, W.M. de (2006) Post-natal development of the porcine microbiota composition and activities Environmental Microbiology 8 (7). - p. 1191 - 1199. Kool, D.M.; Hoffland, E.; Abrahamse, P.A.; Groenigen, J.W. van (2006) What artificial urine composition is adequate for simulating soil N2O fluxes and mineral N dynamics? Soil Biology and Biochemistry 38 (7). - p. 1757 - 1763. Krimpen, M.M. van; Kwakkel, R.P.; Reuvekamp, B.F.J.; Peet-Schwering, C.M.C. van der; Hartog, L.A. den; Verstegen, M.W.A. (2005) Impact of feeding management on feather pecking in laying hens World's Poultry Science Journal 61 (4). - p. 663 - 686. Lan, Y.; Verstegen, M.W.A.; Tamminga, S.; Williams, B.A.; Erdi, G.; Boer, H. (2005) The role of the commensal gut microbial community in broiler chickens World's Poultry Science Journal 61 (1). - p. 95 - 104. Lan, Y.; Williams, B.A.; Tamminga, S.; Boer, H.; Akkermans, A.; Erdi, G.; Verstegen, M.W.A. (2005) In vitro fermentation kinetics of some non-digestible carbohydrates by the caecal microbial community of broilers Animal Feed Science and Technology 123-124 (2). - p. 687 - 702. Lange, H.J. de; Lürling, M.F.L.L.W.; Borne, J.J.G.C. van den; Peeters, E.T.H.M. (2005) Attraction of the amphipod Gammarus pulex to water-borne cues of food Hydrobiologia 544 (1). - p. 19 - 25. 83 WIAS Midterm Review 2007 Animal Nutrition Le Dinh Phung, --; Aarnink, A.J.A.; Ogink, N.W.M.; Verstegen, M.W.A. (2005) Effects of environmental factors on odor emission from pig manure Transactions of the ASAE 48 (2). - p. 757 - 765. Leeuw, J.A. de; Jongbloed, A.W.; Verstegen, M.W.A. (2004) Dietary fiber stabilizes blood glucose and insulin levels and reduces physical activity in sows (Sus scrofa) Journal of Nutrition 134 (6). - p. 1481 - 1486. Leeuw, J.A. de; Jongbloed, A.W.; Spoolder, H.A.M.; Verstegen, M.W.A. (2005) Effects of hindgut fermentation of non-starch polysaccharides on the stability of blood glucose and insulin levels and physical activity in empty sows Livestock Production Science 96 (3). - p. 165 - 174. Leeuw, J.A. de; Zonderland, J.J.; Altena, H.; Spoolder, H.A.M.; Jongbloed, A.W.; Verstegen, M.W.A. (2005) Effects of levels and sources of dietary fermentable non-starch polysaccharides on blood glucose stability and behaviour of group-housed pregnant gilts Applied Animal Behaviour Science 94 (1-2). - p. 15 - 29. Leeuwen, P. van; Mouwen, J.M.V.M.; Klis, J.D. van der; Verstegen, M.W.A. (2004) Morphology of the small intestinal mucosal surface of broilers in relation to age, diet formulation, small intestinal microflora and performance British Poultry Science 45 (1). - p. 41 - 48. Lopez, S.; Prieto, M.; Dijkstra, J.; Dhanoa, M.S.; France, J. (2004) Statistical evaluation of mathematical models for microbial growth International Journal of Food Microbiology 96 (3). - p. 289 - 300. Lopez, S.; Davies, D.; Dhanoa, M.S.; Dijkstra, J.; France, J. (2005) Assessment of the nutritive value of cereal and legume straws based on chemical composition and in vitro digestibility Journal of the Science of Food and Agriculture 85 (9). - p. 1550 - 1557. Mieczkowska, A; Jansman, A.J.M.; Kwakkel, R.P.; Smulikowski, S. (2005) The effect of dehulling and a-glactosidase supplementation on the ileal digestibility of lupin based diets in broiler chickens and adult roosters Journal of Animal and Feed Sciences 14 . - p. 297 - 304. Moran, C.A.; Scholten, R.H.J.; Tricarico, J.M.; Brooks, P.H.; Verstegen, M.W.A. (2006) Fermentation of wheat: effects of backslopping different proportions of pre-fermented wheat on the microbial and chemical composition Archives of Animal Nutrition 60 (2). - p. 158 - 169. Nolles, J.A.; Straten, E.M.E. van; Bremer, B.I.; Koopmanschap, R.E.; Verstegen, M.W.A.; Schreurs, V.V.A.M. (2006) Dietary amino acids fed in free form and as protein components do not differently affects postprandial plasma insulin, glucagon, growth hormone and corticosterone responses in rats Journal of Animal Physiology and Animal Nutrition 90 (7-8). - p. 289 - 299. Oenema, O.; Tamminga, S. (2005) Nitrogen in global animal production and management options for improving nitrogen use efficiency Science in China Series C-Life Sciences 48 . - p. 871 - 887. Ozorio, R.; Ginneken, V.J.T. van; Thillart, G. van den; Verstegen, M.W.A.; Verreth, J.A.J. (2005) Dietary Carnitine maintains energy reserves and delays fatigue of exercised African catfish (Clarias Gariepinus) fed high fat diets Scienta Agricola 62 (3). - p. 208 - 213. 84 WIAS Midterm Review 2007 Animal Nutrition Peet-Schwering, C.M.C. van der; Kemp, B.; Plagge, J.G.; Vereijken, P.F.G.; Hartog, L.A. den; Spoolder, H.A.M.; Verstegen, M.W.A. (2004) Performance and individual feed intake characteristics of group-housed sows fed a nonstarch polysaccharides diet ad libitum during gestation over three parities Journal of Animal Science 82 (4). - p. 1246 - 1257. Peet-Schwering, C.M.C. van der; Kemp, B.; Binnendijk, G.P.; Hartog, L.A. den; Vereijken, P.F.G.; Verstegen, M.W.A. (2004) Effects of additional starch or fat in late-gestating high nonstarch polysaccharide diets on litter performance and glucose tolerance in sows Journal of Animal Science 82 (10). - p. 2964 - 2971. Potter, M.A.; Lentle, R.G.; Birtles, M.J.; Thomas, D.; Hendriks, W.H. (2006) Gastrointestinal tract of the brown kiwi (Apteryx mantelli) Journal of Zoology 270 (3). - p. 429 - 436. Resende Júnior, J.C.; Pereira, M.N.; Boer, H.; Tamminga, S. (2006) Comparison of Techniques to Determine the Clearance of Ruminal Volatile Fatty Acids Journal of Dairy Science 89 (8). - p. 3096 - 3106. Rodenburg, T.B.; Hulst-van Arkel, M.C. van der; Kwakkel, R.P. (2004) Campylobacter and Salmonella infections on organic broiler farms NJAS Wageningen Journal of Life Sciences 52 (2). - p. 101 - 108. Rutherfurd-Markwick, K.J.; McGrath, M.C.; Weidgraaf, K.; Hendriks, W.H. (2006) y-Glutamylfelinylglycine Metabolite Excretion in the Urine of the Domestic Cat (Felis catus)1-3 Journal of Nutrition 136 (7). - p. 2075S - 2077S. Rymer, C.; Huntington, J.A.; Williams, B.A.; Givens, D.I. (2005) In vitro cumulative gas production techniques: history, methodological considerations and challenges Animal Feed Science and Technology 123-124 (1). - p. 9 - 30. Rymer, C.; Williams, B.A.; Brooks, A.E.; Davies, D.R.; Givens, D.I. (2005) Inter-laboratory variation in in vitro gas production profiles of some selected feeds, using both manual and automated methods Animal Feed Science and Technology 123-124 (1). - p. 225 - 241. Shim, S.B.; Williams, I.H.; Verstegen, M.W.A. (2005) Effects of dietary fructo- oligosaccharide on villous height and disaccharidase activity of the small intestine, pH, VFA and ammonia concentrations in the large intestine of weaned pigs Acta Agriculturae Scandinavica Section A-Animal Science 55 (2-3). - p. 91 - 97. Shim, S.B.; Verstegen, M.W.A.; Kim, I.H.; Kwon, O.S.; Verdonk, J.M.A.J. (2005) Effects of feeding antibiotic-free creep feed supplemented with oligofructose, probiotics or synbiotics to suckling piglets increases the preweaning weight gain and composition of intestinal microbiota Archives of Animal Nutrition 59 (6). - p. 419 - 427. Smit, H.J.; Taweel, H.Z.; Tas, B.M.; Tamminga, S.; Elgersma, A. (2005) Comparison of techniques for estimating herbage intake by grazing dairy cows Journal of Dairy Science 88 (5). - p. 1827 - 1836. Smit, H.J.; Tas, B.M.; Taweel, H.Z.; Elgersma, A. (2005) Sward characteristics important for intake in six Lolium perenne varieties Grass and Forage Science 60 (2). - p. 128 - 135. 85 WIAS Midterm Review 2007 Animal Nutrition Smit, H.J.; Tas, B.M.; Taweel, H.Z.; Tamminga, S.; Elgersma, A. (2005) Effects of perennial ryegrass (Lolium perenne L.) cultivars on herbage production, nutritional quality and herbage intake of grazing dairy cows Grass and Forage Science 60 (3). - p. 297 - 309. Smit, H.J.; Tamminga, S.; Elgersma, A. (2006) Dairy cattle grazing preference among six cultivars of perennial ryegrass Agronomy Journal 98 . - p. 1213 - 1220. Steendam, C.A.; Tamminga, S.; Boer, H.; Jong, E.J. de; Visser, G.H.; Verstegen, M.W.A. (2004) Ileal endogenous nitrogen recovery is increased and its amino acid pattern is altered in pigs fed quebracho extract Journal of Nutrition 134 (11). - p. 3076 - 3082. Steendam, C.A.; Verstegen, M.W.A.; Tamminga, S.; Boer, H.; End, M. van 't; Verstappen, B.; Caine, W.R.; Visser, G.H. (2004) Route of tracer administration does not affect ileal endogenous nitrogen recovery measured with the 15N-Isotope dilution technique in pigs fed rapidly digestible diets Journal of Nutrition 134 (11). - p. 3068 - 3075. Stokes, C.R.; Bailey, M.; Haverson, K.; Harris, C.; Jones, P.; Inman, C.; Pie, S.; Oswald, I.P.; Williams, B.A.; Akkermans, A.D.L.; Sowa, E.; Rothkotter, H.-J.; Miller, B.G. (2004) Postnatal development of intestinal immune system in piglets: implications for the process of weaning Animal Research 53 (4). - p. 325 - 334. Suárez, B.J.; Reenen, C.G. van; Beldman, G.; Delen, J. van; Dijkstra, J.; Gerrits, W.J.J. (2006) Effects of Supplementing Concentrates Differing in Carbohydrate Composition in Veal Calf Diets: I. Animal Performance and Rumen Fermentation Characteristics Journal of Dairy Science 89 (11). - p. 4365 - 4375. Suárez, B.J.; Reenen, C.G. van; Gerrits, W.J.J.; Stockhofe, N.; Vuuren, A.M. van; Dijkstra, J. (2006) Effects of Supplementing Concentrates Differing in Carbohydrate Composition in Veal Calf Diets: II. Rumen Development Journal of Dairy Science 89 (11). - p. 4376 - 4386. Tamminga, S. (2006) The effect of the supply of rumen degradable protein and metabolisable protein on negative energy balance and fertility in dairy cows Animal Reproduction Science 96 (3-4). - p. 227 - 239. Tas, B.M.; Taweel, H.Z.; Smit, H.J.; Elgersma, A.; Dijkstra, J.; Tamminga, S. (2005) Effects of perennial ryegrass cultivars on intake, digestibility, and milk yield in dairy cows Journal of Dairy Science 88 (9). - p. 3240 - 3248. Tas, B.M.; Taweel, H.Z.; Smit, H.J.; Elgersma, A.; Dijkstra, J.; Tamminga, S. (2006) Utilisation of N in perennial ryegrass cultivars by stall-fed lactating dairy cows Livestock Science 100 (2-3). - p. 159 - 168. Tas, B.M.; Taweel, H.Z.; Smit, H.J.; Elgersma, A.; Dijkstra, J.; Tamminga, S. (2006) Effects of perennial ryegrass cultivars on milk yield and nitrogen utilization in grazing dairy cows Journal of Dairy Science 89 . - p. 3494 - 3500. Tas, B.M.; Taweel, H.Z.; Smit, H.J.; Elgersma, A.; Dijkstra, J.; Tamminga, S. (2006) Rumen degradation characteristics of perennial ryegrass cultivars during the growing season Animal Feed Science and Technology 131 (1-2). - p. 102 - 119. 86 WIAS Midterm Review 2007 Animal Nutrition Taweel, H.Z.; Tas, B.M.; Dijkstra, J.; Tamminga, S. (2004) Intake Regulation and Grazing Behavior of Dairy Cows Under Continuous Stocking Journal of Dairy Science 87 (10). - p. 3417 - 3427. Taweel, H.Z.; Tas, B.M.; Smit, H.J.; Elgersma, A.; Dijkstra, J.; Tamminga, S. (2005) Effects of feeding perennial ryegrass with an elevated concentration of water-soluble carbohydrates on intake, rumen function and performance of dairy cows Animal Feed Science and Technology 121 (3-4). - p. 243 - 256. Taweel, H.Z.; Tas, B.M.; Smit, H.J.; Elgersma, A.; Dijkstra, J.; Tamminga, S. (2005) Improving the quality of perennial ryegrass (Lolium perenne L.) for dairy cows by selecting for fast clearing and/or degradable neutral detergent fiber Livestock Production Science 96 (2-3). - p. 239 - 248. Taweel, H.Z.; Tas, B.M.; Smit, H.J.; Elgersma, A.; Dijkstra, J.; Tamminga, S. (2006) Grazing behaviour, intake, rumen function and milk production of dairy cows offered Lolium perenne containing different levels of water-soluble carbohydrates Livestock Science 102 (1-2). - p. 33 - 41. Taweel, H.Z.; Tas, B.M.; Smit, H.J.; Tamminga, S.; Elgersma, A. (2006) A note on eating behaviour of dairy cows at different stocking systems - diurnal rhythm and effects of ambient temperature Applied Animal Behaviour Science 98 (3-4). - p. 315 - 322. Val-Arreola, D.; Kebreab, E.; Dijkstra, J.; France, J. (2004) Study of the Lactation Curve in Dairy Cattle on Farms in Central Mexico Journal of Dairy Science 87 . - p. 3789 - 3799. Veldkamp, T.; Kwakkel, R.P.; Ferket, P.R.; Verstegen, M.W.A. (2005) Growth responses to dietary energy and lysine at high and low ambient temperature in male turkeys Poultry Science 84 . - p. 273 - 282. Vente-Spreeuwenberg, M.A.M.; Verdonk, J.M.A.J.; Koninkx, J.F.J.G.; Beynen, A.C.; Verstegen, M.W.A. (2004) Dietary protein hydrolysates vs. the intact proteins do not enhance mucosal integrity and growth performance in weaned piglets Livestock Production Science 85 (2-3). - p. 151 - 164. Vente-Spreeuwenberg, M.A.M.; Verdonk, J.M.A.J.; Bakker, G.C.M.; Beynen, A.C.; Verstegen, M.W.A. (2004) Effect of dietary protein source on feed intake and small intestinal morphology in newly weaned piglets Livestock Production Science 86 (1-3). - p. 169 - 177. Verdonk, J.M.A.J.; Shim, S.B.; Leeuwen, P. van; Verstegen, M.W.A. (2005) Application of inulin-type fructans in animal feed and pet food British Journal of Nutrition 93 (suppl. 1). - p. S125 - S138. Vlaeminck, B.; Fievez, V.; Tamminga, S.; Dewhurst, R.J.; Vuuren, A.M. van; Brabander, D. de; Demeyer, D. (2006) Milk Odd- and Branched-Chain Fatty Acids in Relation to the Rumen Fermentation Pattern Journal of Dairy Science 89 (10). - p. 3954 - 3964. Vries, M. de; Kwakkel, R.P.; Kijlstra, A. (2006) Dioxins in organic eggs: a review NJAS Wageningen Journal of Life Sciences 54 (2). - p. 207 - 221. Walton, M.C.; McGhie, T.K.; Reynolds, G.W.; Hendriks, W.H. (2006) The Flavonol Quercetin-3-Glucoside Inhibits Cyanidin-3-Glucoside Absorption in Vitro Journal of Agricultural and Food Chemistry 54 (13). - p. 4913 - 4920. 87 WIAS Midterm Review 2007 Animal Nutrition Wieland, W.H.; Orzaéz Calatayud, D.V.; Lammers, A.; Parmentier, H.K.; Verstegen, M.W.A.; Schots, A. (2004) A functional polymeric immunoglobulin receptor in chicken (Gallus gallus) indicates ancient role of secretory IgA in mucosal immunity Biochemical Journal 380 (3). - p. 669 - 676. Wilkinson, B.H.P.; Janz, J.A.M.; Morel, P.C.H.; Purchas, R.W.; Hendriks, W.H. (2006) The effect of modified atmosphere packaging with carbon monoxide on the storage quality of master-packaged fresh pork Meat Science 73 (4). - p. 605 - 610. Williams, B.A.; Bosch, M.W.; Awati, A.A.; Konstantinov, S.R.; Smidt, H.; Akkermans, A.D.L.; Verstegen, M.W.A.; Tamminga, S. (2005) In vitro assessment of gastrointestinal tract (GIT) fermentation: Fermentable substrates and microbial activity Animal Research 54 (3). - p. 191 - 201. Williams, B.A.; Bosch, M.W.; Boer, H.; Verstegen, M.W.A.; Tamminga, S. (2005) An in vitro batch culture method to assess potential fermentability of feed ingredients for monogastric diets Animal Feed Science and Technology 123-124 (1). - p. 445 - 462. Williams, P.A.; Hodgkinson, S.M.; Rutherfurd, S.M.; Hendriks, W.H. (2006) Lysine Content in Canine Diets Can Be Severely Heat Damaged1-3 Journal of Nutrition 136 . - p. 1998S - 2000S. Yang, H.J.; Tamminga, S.; Williams, B.A.; Dijkstra, J.; Boer, H. (2005) In vitro gas and volatile fatty acids production profiles of barley and maize and their soluble and washout fractions after feed processing Animal Feed Science and Technology 120 (1-2). - p. 125 - 140. Yao, W.; Zhu Wei-Yun, --; Han, Z.K.; Akkermans, A.D.L.; Williams, B.A.; Tamminga, S. (2004) Analysis of rumen bacterial diversity of goat by denaturing gradient electrophoresis and 16S rDNA sequencing Scientia Agricultura Sinica 37 (9). - p. 1374 - 1378. Yao, W.; Zhu Wei-Yun, --; Han, Z.K.; Williams, B.A.; Tamminga, S.; Akkermans, A.D.L. (2004) Daidzein increased the density but not composition of Lactobacillus community in piglet digesta during in vitro fermentation as revealed by DGGE and dilution PCR Reproduction Nutrition Development 44 . - p. S17. Refereed book chapters Bannink, A.; Dijkstra, J.; Kebreab, E.; France, J. (2006) Advantages of a dynamical approach to rumen function to help to resolve environmental issues In: Nutrient Digestion and Utilization in Farm Animals: Modelling Approaches / Kebreab, E., Dijkstra, Dr ir J., Bannink, Drs A., Gerrits, Dr ir W.J.J., France, J., . - Wallingford : CAB International, - p. 281 - 298. Bauer, E.; Williams, B.A.; Mosenthin, R.; Verstegen, M.W.A. (2004) Probiotics - potential dietary modulation of intestinal physiology, microbiology, and immunity in pigs In: Biology of nutrition in growing animals / Mosenthin, R.,, . - Amsterdam : Elsevier Publishers, Bauer, E.; Williams, B.A.; Mosenthin, R.; Verstegen, M.W.A. (2005) Probiotics - potential dietary modulation of intestinal physiology, microbiology and immunity in pigs In: Biology of nutrition in growing animals / Mosenthin, Prof.dr. R., Zentek, J., Zebrowska, T., . - Elsevier, - p. 500. Bauer, E.; Williams, B.A.; Verstegen, M.W.A.; Mosenthin, R. (2006) Fermentable carbohydrates, potential dietary modulators of intestinal physiology, microbiology and immunity in pigs In: Biology of the Nutrition in Growing Pigs / Mosenthin, Prof.Dr. R., Zentek, J., Zebrowska, T., . - 88 WIAS Midterm Review 2007 Animal Nutrition Chilibroste, P.; Gibb, M.J.; Tamminga, S. (2005) Pasture characteristics and animal performance In: Quantitative Aspects of Ruminant Digestion and Metabolism, 2nd edition / Dijkstra, Dr ir J., Forbes, J.M., France, J., . - Wallingford, United Kingdom : CAB International, - p. 736. Collao-Saenz, E.A.; Bannink, A.; Kebreab, E.; France, J.; Dijkstra, J. (2006) Simulation of rumen particle dynamics using a non-steady state model of rumen digestion and nutrient availability in dairy cows fed sugarcane In: Nutrient Digestion and Utilization in Farm Animals: Modelling Approaches / Kebreab, E., Dijkstra, Dr ir J., Bannink, Drs A., Gerrits, Dr ir W.J.J., France, J., . - Wallingford : CAB International, - p. 33 - 39. Dijkstra, J.; Forbes, J.M.; France, J. (2005) Introduction In: Quantitative Aspects of Ruminant Digestion and Metabolism, second edition / Dijkstra, Dr ir J., Forbes, J.M., France, J., . - Wallingford, United Kingdom : CAB International, Dijkstra, J.; France, J. (2006) Combining in vitro data and modelling to predict in vivo animal response In: Herbivores: the Assessment of Intake, Digestibility and the Roles of Secondary Compounds / SandovalCastro, C.A., Hovell, F.D. DeB., Torres-Acosta, J.F.J., Ayala-Burgos, A., . - Nottingham : Nottingham University Press, - p. 135 - 144. Dijkstra, J.; Kebreab, E.; Kwakkel, R.P.; France, J. (2006) Development of a dynamic model of calcium and phosphorous flows in layers In: Nutrient Digestion and Utilization in Farm Animals: Modelling Approaches / Kebreab, J., Dijkstra, Dr ir J., Bannink, Drs A., Gerrits, Dr ir W.J.J., France, J., . - Wallingford : CAB International, - p. 192 - 210. Elgersma, A.; Tamminga, S.; Dijkstra, J. (2006) Lipids in herbage : their fate in the rumen of dairy cows and implications for milk quality In: Fresh herbage for dairy cattle / Elgersma, A., Dijkstra, J., Tamminga, S., . - Dordrecht : Springer, (Wageningen UR Frontis Series 18) - p. 175 - 194. France, J.; Dijkstra, J. (2005) Volatile fatty acid production In: Quantitative aspects of ruminant digestion and metabolism, second edition / Dijkstra, Dr ir J., Forbes, J.M., France, J., . - Wallingford, United Kingdom : CAB International, France, J.; Dijkstra, J. (2006) Scientific progress and mathematical modelling: different approaches to modelling animal systems In: Mechanistic Modelling in Pig and Poultry Production / Gous, R., Morris, T.R., Fisher, C., . - Wallingford : CAB International, - p. 6 - 21. Kebreab, E.; France, J.; McBride, B.W.; Odongo, N.; Bannink, A.; Mills, J.A.N.; Dijkstra, J. (2006) Evaluation of models to predict methane emissions from enteric fermentation in North American dairy cattle In: Nutrient Digestion and Utilization in Farm Animals: Modelling Approaches / Kebreab, E., Dijkstra, Dr ir J., Bannink, Drs A., Gerrits, Dr ir W.J.J., France, J., . - Wallingford : CAB International, - p. 299 - 313. Lopez, S.; Prieto, M.; Dijkstra, J.; Kebreab, E.; Dhanoa, M.S.; France, J. (2006) Functions for microbial growth In: Nutrient Digestion and Utilization in Farm Animals: Modelling Approaches / Kebreab, E., Dijkstra, Dr ir J., Bannink, Drs A., Gerrits, Dr ir W.J.J., France, J., . - Wallingford : CAB International, - p. 54 - 68. Tas, B.M. (2006) Nitrogen utilization of perennial ryegrass in dairy cows In: Fresh Herbage for Dairy Cattle / Elgersma, Dr ir A., Dijkstra, Dr ir J., Tamminga, Prof Dr Ir S., . Dordrecht : Springer, (Wageningen UR Frontis Series 18) - p. 125 - 140. 89 WIAS Midterm Review 2007 Animal Nutrition Taweel, H.Z. (2006) Improving dry-matter intake of perennial-ryegrass pasture by dairy cows In: Fresh herbage for dairy cattle / Dijkstra, J., Tamminga, S., Elgersma, A., . - Dordrecht : Springer, (Wageningen UR Frontis Series 18) - p. 159 - 174. Taweel, H.Z.; Tas, B.M.; Tamminga, S.; Dijkstra, J. (2006) The role of rumen fill in terminating grazing bouts of dairy cows under continuous stocking In: Nutrient Digestion and Utilization in Farm Animals: Modelling Approaches / Kebreab, E., Dijkstra, Dr ir J., Bannink, Drs A., Gerrits, Dr ir W.J.J., France, J., . - Wallingford : CAB International, - p. 48 - 53. Verstegen, M.W.A.; Tamminga, S. (2005) The challenges in Animal Nutrition in the 21st Century In: New Challenges in 21st Century Animal Nutrition / Babinszky, Prof dr L., . - Kaposvar, Hungary : University of Kaposvar, Faculty of Animal Science, Williams, B.A. (2005) Cumulative gas production: how to measure it, and what it can and cannot tell you In: Herbivores. - Nottingham University Press, (BSAS Publication 34) - p. 250. Non-refereed book chapters Assis, A.G.; Campos, O.F.; France, J.; Dijkstra, J. (2005) Evaluating tropical forages by a simulation model of nutrient kinetics In: Coping with Feed Scarcity in Smallholder Livestock Systems in Developing Countries / Ayantunde, A.A., Fernández-Rivera, S., McGrabb, G., . - ILRI, - p. 277 - 283. Bannink, A.; Tamminga, S. (2005) Rumen Function In: Quantitative Aspects of Ruminant Digestion and Metabolism / Dijkstra, J, Forbes, JM, France, J, . Wallingford : CAB International, - p. 263 - 288. Bannink, A.; Dijkstra, J.; Mills, J.A.N.; Kebreab, E.; France, J. (2005) Nutritional strategies to reduce enteric formation in dairy cows In: Emissions from European Agriculture / Kuczynski, T., Dämmgen, U., Webb, J., Myczko, A., . - Wageningen : Wageningen Academic Publishers, - p. 367 - 376. Tamminga, S. (2005) Challenges in Cattle Nutrition in the 21st Century In: New Challenges in 21st Century Animal Nutrition / Babinszky, Prof dr L., . - Kaposvar, Hungary : University of Kaposvar, Faculty of Animal Science, Tamminga, S. (2005) Achievements of research in the field of environment and waste management In: Animal production and animal science worldwide, WAAP Book of the year 2005 / Rosati, A., Tewolde, A., Mosconi, C., . - Wageningen : Wageningen Press, - p. 117 - 124. Volpe, V.; Boston, R.C.; Susmel, P.; Moate, P.J.; France, J.; Dijkstra, J. (2004) The use of WINSAAM for modelling complex ruminal metbolism In: Mathematical modeling in nutrition and toxicology : the proceedings of the International Conference on Mathematical Modeling in Nutrition and Environmental Toxicology held at the University of Georgia in September, 2003 / Hargrove, J.L., Berdanier, C.D., . - Athens, Georgia, U.S.A : Mathematical Biology Press, p. 111 - 139. Monographs Dijkstra, J.; Forbes, J.M.; France, J. (2005) Quantitative Aspects of Ruminant Digestion and Metabolism, second edition Wallingford, United Kingdom : CAB International, - p. 736. 90 WIAS Midterm Review 2007 Animal Nutrition Elgersma, A.; Dijkstra, J.; Tamminga, S. (2006) Proceedings of the Frontis workshop on fresh herbage for dairy cattle : the key to a sustainable food chain In: Proceedings of the Frontis Workshop on Fresh herbage for dairy cattle: the key to a sustainable food chain, Wageningen, The Netherlands, April 2005. - Wageningen UR Frontis Series 18 .Dordrecht : Springer, (Wageningen UR Frontis Series 18) Kebreab, E.; Dijkstra, J.; Bannink, A.; Gerrits, W.J.J.; France, J. (2006) Nutrient Digestion and Utilization in Farm Animals Wallingford, UK : CAB International, - p. 480. Proceedings (Full papers only) Aarnink, A.J.A.; Landman, W.J.M.; Melse, R.W.; Huynh Thi Thanh Thuy, -- (2005) Systems for eliminating pathogens from exhaust air of animal houses In: Livestock Environment VII : proceedings of the seventh international symposium, 18-20 May 2005, Bejing, China. - Bejing, China : American Society of Agricultural Engineers, - p. 239 - 244. Ange-van Heugten, K.; Jansen, W.; Verstegen, M.W.A.; Burns, R.; Jens, W.; Heugten, E. (2004) Woolly monkey (Lagothrix Lagotricha) serum chemistry measurements as an indicator of health status In: Fifth Biennial Comparative Nutrition Society Symposium, Kalamazoo, Michigan, 14-19 July 2004. Kalamazoo, Michigan : - p. 7 - 10. Bannink, A.; Dijkstra, J.; Mills, J.A.N.; Kebreab, E.; France, J. (2005) A dynamic approach for evaluating farm-specific as well as general policies to mitigate methane emissions by dairy cows In: Fourth International Symposium on Non-CO2 Greenhouse Gases (CGG-4) Science, Control, Policy and Implementation. - Utrecht : Millpress Science Publishers, - p. 75 - 82. Eits, R.M.; Kwakkel, R.P.; Verstegen, M.W.A. (2004) Nutrition affects fat-free body composition in broiler chickens In: Worlds Poultry Journal. Eits, R.M.; Kwakkel, R.P.; Reindsen, B.G.E.; Zandstra, T.; Maatman, A.A. (2006) Effect of housing system on balanced protein requirements in laying hens In: Proceedings of the 15th European Symposium on Poultry Nutrition, 25 - 29 September, 2005, Balatonfured, Hungary. - Balatonfured, Hungary : Elgersma, A.; Ellen, G.; Tamminga, S. (2004) Rapid decline of contents of beneficial omega-7 fatty acids in milk from grazing cows with decreasing herbage allowance In: Land use systems in grassland dominated regions. - Zürich : vdf Hochschulverlag, - p. 1136 - 1138. Gerrits, W.J.J.; Verstegen, M.W.A. (2005) Role of dietary non-starch polysaccharides in pig nutrition In: Proceedings of the 10th Biennial Conference of the Australasian Pig Science Association, Christchurch, New Zealand, 27-30 November 2005. Gerrits, W.J.J.; Verstegen, M.W.A. (2006) Dietary carbohydrates: impact on behavior physical activity and well being of pigs and its net energy value In: Proceedings of the 2006 Eastern Nutrition Conference. Hartog, L.A. den; Gutierrez del Alamo Oms, A.; Doorenbos, J.; Flores Minambres, A. (2005) The effect of natural alternatives for anti-microbial growth promoters in broiler diets In: Proceedings 15th European symposium on poultry nutrition, Balatonfüred, Hungary, 2005. - Balatonfüred, Hungary : - p. 212 - 220. 91 WIAS Midterm Review 2007 Animal Nutrition Huynh Thi Thanh Thuy, --; Aarnink, A.J.A.; Gerrits, W.J.J.; Heetkamp, M.J.W.; Truong, C.T.; Spoolder, H.A.M.; Kemp, B.; Verstegen, M.W.A. (2004) Behavioural adaptation of fattening pigs to high ambient temperatures and humidities In: The Impact of Environmental Conditions on Animal Welfare, 2nd International Symposium, Krakow, Poland, 2004. - Krakow, Poland : - p. 49 - 52. Huynh Thi Thanh Thuy, --; Aarnink, A.J.A.; Verstegen, M.W.A. (2005) Reactions of pigs to a hot environment In: Livestock Environment VII : proceedings of the seventh international symposium, 18-20 May 2005, Bejing, China. - Bejing, China : American Society of Agricultural Engineers, - p. 544 - 550. Mai, A.K.; Bosch, G.; Poel, A.F.B. van der; Kwakkel, R.P. (2006) Liquid and solid wheat starch in diets for broilers: effect on feed intake, foregut development and performance In: Proceedings of the 15th European Symposium on Poultry NutritionBalatonfured, Hungary, 25-29 September 2006. Rodenburg, T.B.; Hulst-van Arkel, M.C. van der; Kwakkel, R.P. (2004) Organic broilers in the Netherlands In: Proceedings of the 2nd SAFO Workshop, Witzenhausen, Germany, 25-27 March 2004. Smit, H.J.; Oudman, F.; Dijkstra, J.; Elgersma, A. (2006) Effect of nitrogen fertilization on the fatty acid composition of grass and the CLA content of milk from grazing dairy cows In: British Grassland Society: Papers presented at the 8th Research Conference. - Cirencester : - p. 19 - 20. Tas, B.M.; Taweel, H.Z.; Smit, H.J.; Elgersma, A.; Dijkstra, J.; Tamminga, S. (2004) Intake and milk production of cows grazing perennial ryegrass cultivars with different crown rust resistance In: Land use systems in grassland dominated regions. - Zürich : vdf Hochschulverlag, - p. 1080 - 1082. Wolters, I.; Groot, J. de; Boer, H.; Poel, A.F.B. van der (2004) A modified trypsin inhibitor affinity chromatography assay for industrial application In: Proceedings 4th ANF Workshop, Toledo, Spain, 8-10 March 2004. - Toledo, Spain : - p. 77 - 80. Scientific reports Aarnink, A.J.A.; Landman, W.J.M.; Melse, R.W.; Gijsel, P. de; Huynh Thi Thanh Thuy, --; Fabri, T. (2004) Voorkomen van verspreiding van ziektekiemen en milieu-emissies via luchtreiniging Wageningen : Agrotechnology & Food Innovations, (Rapport / Agrotechnology & Food Innovations 59) - p. 63. Abrahamse, P.A.; Dijkstra, J.; Tamminga, S. (2006) De invloed van dagelijks of 4-daags omweiden op voeropnamepatroon, pensfermentatiekarakteristieken en melkproductie bij melkvee Wageningen : Leerstoelgroep Diervoeding, Knegsel, A.T.M. van; Brand, H. van den; Graat, E.A.M.; Dijkstra, J.; Jorritsma, R.; Decuypere, E.; Tamminga, S.; Kemp, B. (2006) Effect van energiesoort in het rantsoen en de energiebalans op plasma metabolieten en metabole hormonen in melkvee in de vroege lactatie Wageningen : Lsg Adaptatiefysiologie, Lsg Diervoeding, Schothorst, - p. 26. Knegsel, A.T.M. van; Brand, H. van den; Dijkstra, J.; Straalen, W.M. van; Heetkamp, M.J.W.; Tamminga, S.; Kemp, B. (2006) Effect van energiesoort in het rantsoen op de energiebalans en melksamenstelling bij melkvee in de vroege lactatie Wageningen : Lsg Adaptatiefysiologie, Lsg Diervoeding, Schothorst, - p. 1 - 35. 92 WIAS Midterm Review 2007 Animal Nutrition Krimpen, M.M. van; Kwakkel, R.P.; Andre, G.; Peet-Schwering, C.M.C. van der; Hartog, L.A. den; Verstegen, M.W.A. (2006) Effect of nutrient density, NSP source, coarseness of NSP and feed form on performance and behaviour of hens at early lay. Wageningen : ASG, Wageningen UR, (Report / Animal Sciences Group 09) - p. 62. Krimpen, M.M. van; Kwakkel, R.P.; Andre, G.; Peet-Schwering, C.M.C. van der; Hartog, L.A. den; Verstegen, M.W.A. (2006) Effect of energy content, NSP content and coarseness of NSP on feather pecking, eating behaviour and performance of laying hens Wageningen : ASG, Wageningen UR, Mosquera, J.; Wagemans, M.J.M.; Aarnink, A.J.A.; Huynh Thi Thanh Thuy, --; Gijsel, P. de; Hol, J.M.G. (2004) Guidelines to use the RespiCon unit for dust concentration measurements in practice Wageningen : Agrotechnology & Food Innovations, (Rapport / Agrotechnology & Food Innovations 293) - p. 32. Rijnen, M.M.J.A.; Schrama, J.W.; Borne, J.J.G.C. van den; Gerrits, W.J.J.; Cone, J.W.; Gelder, A.H. van (2004) Effecten van fermenteerbare grondstoffen op de fysieke activiteit in relatie tot energiebenutting bij varkens. Fase 2: Invloed van fermentatiesnelheid van fermenteerbare koolhydraten Wageningen : Wageningen Universiteit, - p. 43. Professional publications and products (incl. patents) Bannink, A.; Dijkstra, J.; Loo, E.N. van (2004) Een modelmatige analyse van effecten van veredeling van gras en maïs op de productieresultaten van melkvee Lelystad : Animal Sciences Group / WUR / Nutrition and Food, - p. 34. Bannink, A.; Gerrits, W.J.J. (2004) Beschrijving functionaliteit gebruikersinterface voor het "op nutriënten gebaseerd voederwaarderingsysteem voor melkvee". ID - Voeding, (Rapport ASG deel A en B 04/0011459) Eekeren, M.R.G. van; Boer, H.; Hanegraaf, M. (2005) Kwaliteit grond is meer dan een goede bemestingstoestand V-focus 2 (4). - p. 18 - 19, 21. Enting, H.; Jong, I.C. de (2004) Aanbevolen: een lichte maaltijd. Onderzoek naar ouderdierenwelzijn en kuikenkwaliteit De Pluimveehouderij 34 (10). - p. 12 - 13. Hendriks, W.H.; Teerds, K.J. (2006) Wat is goede voeding voor een kat Pers info 26 (4). - p. 16 - 17. Knegsel, A.T.M. van; Brand, H. van den; Dijkstra, J.; Tamminga, S.; Kemp, B. (2004) Effect of dietary energy source on energy balance, production, metabolic disorders, health and reproduction in dairy cattle - a reviewWageningen : Animal Sciences Group, - p. 45. Lalles, J.-P.; Mroz, Z.; Smidt, H.; Williams, B.A.; Rothkoetter, H.J.; Mengheri, E.; Bikker, P.; Souffrant, W.-B.; Stokes, C.R.; Oswald, I.P.; Dupraz, P.; Bosi, P.; Seve, B. (2005) Post-weaning gut disorders and alternatives to in-feed antibiotics in piglets: the EU project HEALTHYPIGUT (2001-2004). Aims, organisation and main outcomes Feedinfo . 93 WIAS Midterm Review 2007 Animal Nutrition Le Dinh Phung, --; Becker, P.M.; Aarnink, A.J.A.; Jongbloed, A.W.; Peet-Schwering, C.M.C. van der (2004) Odour from pig production facilities: its relation to diet Wageningen : Agrotechnology and Food Innovations, (Report 115) - p. 66. Poel, A.F.B. van der; Makkink, C.A. (2004) Communicatieproject: "Kwaliteit Diervoeding" afgerond De Molenaar 2004 (9). - p. 53 - 54. Schreurs, V.V.A.M.; Kwakkel, R.P.; Verstegen, M.W.A. (2004) Verschil in metabole benutbaarheid van vrije en eiwitgebonden aminozuren Lsg Diervoeding, - p. 67. Smidt, H.; Verstegen, M.W.A. (2006) Biggen in balans In: Darmflora : samenleven met bacterien. - Stichting Biowetenschappen en Maatschappij, - p. 49 - 50. Tamminga, S.; Aarts, H.F.M.; Bannink, A.; Oenema, O.; Monteny, G.J. (2004) Actualisering van geschatte N en P excreties door rundvee [S.l.] : [s.n.], (Reeks Milieu en Landelijk Gebied 25) - p. 48. Veldhuisen, J.P.; Bijma, P.; Dijkstra, J. (2006) Voeropname onder druk: verhogen productie zonder verslechtering negatieve energiebalans is lastig Veeteelt 23 (21). - p. 12 - 14. Publications for the general public Tamminga, S. (2005) Omzien in verwondering. Wageningen : Wageningen Universiteit & Researchcentrum, - p. 30. Verstegen, M.W.A. (2006) Meerwaarde in diervoeding. Wageningen : Wageningen Universiteit & Researchcentrum, - p. 21. Hendriks, W.H. (2006) Gezamelijk richting dier-voeding interactomics (Collectively heading for animal-nutrition interactomics) Wageningen : Wageningen Universiteit & Researchcentrum, - p. 31. 94 WIAS Midterm Review 2007 Animal Production Systems Animal Production Systems (APS) 1 Reflection on the previous assessment The APS Group has continued to work on development of methodologies for systems research. In the reporting period there was strong emphasis on assessment of sustainability as the ultimate goal of research of the group. This emphasis was in line with the recommendations of the WIAS peer review of 2004. The systems approach is generic in nature and is applied to a diversity of systems ranging from small scale to large scale farming, from one to multiple functions, from extensive to intensive farming systems. Our methodological approach to systems research links to a variety of other groups within and outside WUR. Annex 1 gives an overview of the groups and international institutes with which we cooperate in joint programs. These linkages produce original and scientific approaches to systems research. These linkages also act as transmission platform for creating impact in the field. This is in line with the recommendations of the peer review, although the disciplines we cooperate with, might differ from some of the suggested incremental disciplines. The expertise of the staff is broad and ranges from studies on environmental impact to multifunctional farming systems, societal aspects of sustainability, and sustainable development of smallholder systems in developing countries. Each type of expertise focuses on methods for assessment to contribute to sustainable development. All the PhD studies aim at assessing sustainable development options and developing new tools for sustainability assessment, such as the ongoing studies on the perception of dairy farming in society, the benefits of care-farms for Alzheimer patients, and about resilience (robustness) of livestock farming systems. The completed study about assessment of sustainability of egg production systems is a perfect illustration of the application of the methods for quantification of indicators for sustainability issues. The four PhD studies on sustainable livestock development for developing countries all provided evidence of the importance of the market, institutional and policy environment in which livestock production can develop through adaptation or change. Most of our students arrive with proposals of interest to their own region. This PhD work focuses methodological questions in relation to sustainable development and reflection about the results across countries with different agro-ecological and socio-economic situations. Research on ‘farming development for animal production systems’ has ended. It focused on the integrated approach of nutrition, housing and management in order to improve quality, environment and efficiency on farm and in the production chain. Research on organic livestock systems has been limited to comparative studies. Collaboration with the Animal Sciences Group in Lelystad has been intensified in the areas of environmental impact studies, transition studies in the livestock sector, and animal welfare. New developments New developments have been our participation in two interactive and interdisciplinary programmes of INREF (Interdisciplinary Research and Education Fund): Competing Claims for Natural Resources in Southern Africa, and INREF seed grant for Food, Feed and Biofuel. This last example illustrates the upcoming interest in proposals based on biofuel production opportunities in livestock production and in methods to assess their contribution to sustainable development. The envisaged methodologies build upon some of the developed sustainability 95 WIAS Midterm Review 2007 Animal Production Systems assessment methodologies. The investment in comparative studies with Live Cycle Assessment for environmental impact also provides us with an excellent position for research on climate change originating from the livestock farm, sector and chain (livestock’s long shadow). This type of research is valuable for developing, emerging, as well as developed countries because of the increasing demand for livestock products (livestock revolution). The sustainability issue of agro-diversity will be included in methods to asses ecological sustainability. The next step will be to include more extensive socio-economic indicators in the LCIA. We have joined the EU funded project Welfare Quality which aims to accommodate societal concerns and market demands, to develop reliable on-farm monitoring systems, product information systems, and practical species specific strategies to improve animal welfare. In September 2004 the chair of Animals and Society (AAS; 0.6 fte) was founded and became associated with the chair group APS. See the contribution of the chair Animals and Society on page 25. 96 WIAS Midterm Review 2007 Animal Production Systems 2 Research input Five additional PhD’s supervised by Prof. Den Hartog completed their degree (see list of references). In the past we regularly employed non-tenured staff to assist with teaching. This ended with the appointment of Ir M.A. Thomassen in August 2005. Table 2.1 Research staff Name and present title Full professors Associate professor Assistant professors Period of appointment Start End Prof. A.J. van der Zijpp Dec 1999 Prof. L.A. den Hartog Sep 2001 Apr 2007 Dr. H.M.J. Udo Jan 1987 Dr. I.J.M. de Boer Jun 1994 Dr. C.H.A.M. Eilers Sep 2003 Sep 2004 Sep 2004 Dr. W.J. Koops Nov 1966 Feb 2005 Dr. S.J. Oosting Mar 2001 Ir. M.A.Thomassen **) Nov 2003 Aug 2005 Dr. E.A.M.Bokkers Jan 2004 Jan 2005 Jan 2006 Dr. J.K. Oldenbroek May 2006 Oct Sep Mar May Oct Oct Oct Mar Feb Sep Sep Feb Sep Oct Jun 2003 2003 2003 2005 2000 2005 2006 2005 2001 2002 2003 1993 2002 2000 2006 2004 1998 fte * 1.0 0.2 1.0 0.6 0.4 0.8 1.0 1.0 0.8 0.8 1.0 0.2 0.8 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 RSO AFI Coll Non-tenured staff PhD students Employed DEC DK Dec 2005 Leiden Univ. S. Osinga Sep 2006 1.0 INF *) fte regards the total appointment; tenured staff has approximately 40% available for research **) teaching appointment Table 2.2 Research input in fte by staff, postdocs and PhD students 2004 2005 2006 1999 - 2003 Tenured staff 1.8 1.5 1.4 1.0 Postdocs and other non-tenured staff 0.0 0.3 1.5 0.4 AIO/OIOs 2.0 1.0 1.4 1.8 Other PhD students *) 1.1 1.2 0.8 1.2 Total 4.9 3.9 5.0 4.4 *) research time of external and sandwich PhD students is counted only when spent in Wageningen Boogaard B.K. Bosma R.H. Bras D. Bruin de S.R. Mollenhorst H. Thomassen M.A. Sandwich Chaminuka P. Duku S. Gede S.B.I. Hailemichael A. Mekoya Kassa A. Patil B.R. Phong L.T. Samdup T. Velempini K. External Oudshoorn F.W. Non WIAS PhD students M. Barwegen Dec Oct 2004 2004 ENR SCH TAD ANU SIL Feb Sep Sep Nov 2005 2006 2007 2006 Jul 2007 97 WIAS Midterm Review 2007 Animal Production Systems Table 2.3 Research funding in fte by staff, postdocs and PhD students 2004 2005 2006 University funded 2.8 2.8 3.8 NWO funded 0.7 0.0 0.0 Contract funded 1.4 1.2 1.2 Total 4.9 3.9 5.0 1999 - 2003 1.5 0.5 2.4 4.4 More funding from industry is forth coming and should result in postdoc / PhD projects. More efforts will be made for NWO funding of PhD’s and postdocs. 3 Overview of the results Table 3.1 Publication output 2004 PhD theses Academic publications in refereed journals in other journals refereed book chapters non-refereed book chapters monographs edited books proceedings (full papers only) scientific reports Total academic publications Professional publications and products (incl. IP) Publications for the general public 3 13 1 1 0 1 0 13 0 29 4 0 2005 4 12 0 0 0 0 0 14 0 26 3 1 2006 3 9 0 1 0 0 0 25 2 37 3 3 Average 1999 - 2003 1.6 16.8 1.2 0 1 0.2 0 11.4 0.4 30 2.8 0.4 Table 3.2 Productivity: Number of publications per fte research input Per fte tenured staff Refereed journals Academic publications Per fte total research input Refereed journals Academic publications 2.7 6.0 3.1 6.7 1.8 7.4 3.8 6.8 2004 7.2 16.1 2005 8.0 17.3 2006 6.7 27.4 Average 1999 - 2003 16.2 28.9 The extremely high level of productivity could not be maintained despite more research time input of tenured staff. The goal is to continue with a minimum of 2 peer reviewed publications per annum per scientist and 4-5 peer reviewed publications per PhD student. More attention for refereed journals, less for proceedings. 98 WIAS Midterm Review 2007 Animal Production Systems 4 Analysis, perspectives and expectations of the Chair group Strengths • • • • • • • Opportunities • • • • • • • • • Goals • • • • Strategy • • • Systems approach Expertise on sustainability assessment Interdisciplinarity Responsive to society i.e. environmental and social issues Non-food functions of livestock systems New staff require time and training to become specialists in systems approaches and sustainability assessment Capacity in terms of staff numbers in relation to the great number of issues presented to APS International reputation for sustainability expertise Promotion of the systems approach by WUR Competing claims solutions, see food/feed/biofuel activities Industry is slowly showing interest in sustainability initiatives Interdisciplinary research is not yet mainstream, see publication issues in refereed journals Funding opportunities limited to public sources Focus on contributions to systems research and sustainability assessment Methodological development: environmental and societal issues in particular Contribution to livelihoods and environmental aspects of the food, feed, fuel research and debate Utilise our expertise in the field of biobased economy Environmental impact assessment to mitigate effects of livestock on the environment Exploit methodology for societal dimension of farming systems Continue (selectively) interdisciplinary collaboration for systems research and for expertise not present in APS Attract quality PhD’s and postdocs for systems research and sustainability assessment studies in DED countries Focus activity on food, feed, fuel competition at farm and regional level, in particular for food security, livelihood, social and environmental assessment. Join interdisciplinary programmes with selected partners Weaknesses Threats Analysis 99 WIAS Midterm Review 2007 Animal Production Systems Annex A APS partners WUR partners: Development Economics, Technology and Agrarian Development, Plant Production Systems, Organic Agriculture, Farm Technology, Environmental Economics and Natural Resources, Rural Sociology, Soil Inventory and Land Evaluation, Gender Studies, Centre for Genetic Resources. In the Department Animal Sciences we have joint research projects with Animal Nutrition, Quantitative Veterinary Epidemiology, and Aquaculture and Fisheries. Partners outside WUR: Ecological History and Anthropology (Leiden) Clinical and Health Psychology (Utrecht), Social and Behavioural Sciences (Tilburg) International partners: FAO, ILRI, Farming Systems Group of DIAS, Denmark, Institut Supérieur d’Agriculture, France, Dipartimento di Science Zootecniche, Italy, University of Pretoria, South Africa, Gadjah Mada University and Brawijaya University, Indonesia, Can Tho University, Vietnam, Mekelle University, Ethiopia 100 WIAS Midterm Review 2007 Animal Production Systems Annex B PhD theses List of publications 2004-2006 Abegaz Yimer, A. (2005) Farm management in mixed crop-livestock systems in the Northern Highlands of Ethiopia WUR Wageningen UR. Promotor(en): Keulen, Prof dr ir H. van, co-promotor(en): Oosting, Dr ir S.J.. Wageningen : - p. 224. Barwegen, M.W. (2005) Gouden Hoorns : de geschiedenis van de veehouderij op Java 1850-2000 WUR Wageningen UR. Promotor(en): Zijpp, Prof dr ir A.J. van der, co-promotor(en): Udo, Dr ir H.M.J.. Rotterdam : OPTIMA, - p. 316. Eits, R.M. (2004) Modelling responses of broiler chickens to dietary balanced protein WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A.; Hartog, Prof.dr.ir. L.A. den, copromotor(en): Kwakkel, Dr ir R.P.. - [S.I.] : [s.n.], - p. 163. Gede Suparta Budisatria, I. (2006) Dynamics of small ruminant development in Central Java-Indonesia Wageningen Universiteit. Promotor(en): Zijpp, Prof dr ir A.J. van der, co-promotor(en): Udo, Dr ir H.M.J.; Baliarti, E.. - [S.l. ] : [s.n.], - p. 144. Groenestein, C.M. (2006) Environmental aspects of improving sow welfare with group housing and straw bedding Wageningen Universiteit. Promotor(en): Metz, Prof.dr.ir. J.H.M.; Hartog, Prof.dr.ir. L.A. den. - [S.l. ] : [s.n.], p. 146. Hambrecht, E. (2004) Critical pre- and postslaughter factors in relation to pork quality WUR Wageningen UR. Promotor(en): Hartog, Prof.dr.ir. L.A. den; Verstegen, Prof dr ir M.W.A., copromotor(en): Eissen, J.J.. - [S.I.] : [s.n.], - p. 152. Mollenhorst, H. (2005) How to house a hen : assessing sustainable development of egg production systems WUR Wageningen UR. Promotor(en): Zijpp, Prof dr ir A.J. van der, co-promotor(en): Boer, Dr ir I.J.M. de. Wageningen : WUR, - p. 136. Patil, B.R. (2006) Dynamics of livestock development in Gujarat, India: experiences of an Indian NGO WUR Wageningen UR. Promotor(en): Keulen, Prof dr ir H. van, co-promotor(en): Udo, Dr ir H.M.J.; Schiere, Dr ir J.B.. - [S.l.] : [s.n.], - p. 158. Peet-Schwering, C.M.C. van der (2004) Long-term performance and behavior of sows fed high levels of non-starch polysaccharides WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A.; Kemp, Prof dr ir B., co-promotor(en): Hartog, Prof.dr.ir. L.A. den. - [S.I.] : [s.n.], - p. 141. Wagenberg, A.V. van (2005) Measurement, evaluation and control of the microclimate in rooms for weaned piglets Wageningen Universiteit. Promotor(en): Bot, Prof.dr.ir. G.P.A.; Metz, Prof.dr.ir. J.H.M., co-promotor(en): Hartog, Prof.dr.ir. L.A. den. Scientific articles in refereed journals Baelmans, R.; Parmentier, H.K.; Udo, H.M.J.; Dorny, P.; Demey, F.; Berkvens, D. (2004) Different Serum Haemolytic Complement Levels in Indigenous Chickens from Benin, Bolivia, Cameroon, India and Tanzania Tropical Animal Health and Production 36 (8). - p. 731 - 742. Boogaard, B.K.; Oosting, S.J.; Bock, B.B. (2006) Elements of societal perception of farm animal welfare: A quantitative study in the Netherlands Livestock Science 104 (1-2). - p. 13 - 22. 101 WIAS Midterm Review 2007 Animal Production Systems Bosma, R.H.; Zongo, L.C.; Sané, A.; Zoungrana, C.; Soudré, A. (2004) Participatory comparison of three pig fattening methods in the provinces of Sanguié and Boulkiemdé, Burkina Faso = Comparaison participatoire de trois méthodes d'engraissement des porcs dans les provinces du Sanguié et du Boulkiemdé au Burkina Faso Livestock Research for Rural Development 16 (2). Bosma, R.H.; Savelkoul, H.F.J.; Frankena, K.; Baars, T.; Laarakker, E. (2006) Dairy herd health, impedance on six acupuncture points and immune response factors in milk: A pilot study Livestock Science 99 (2-3). - p. 285 - 290. Bosma, R.H.; Le Thanh Phong, -; Kaymak, U.; Berg, J. van den; Udo, H.M.J.; Mensvoort, M.E.F. van; Le Quang Tri, -- (2006) Assessing and modelling farmers' decision-making on integrating aquaculture into agriculture in the Mekong Delta Netherlands Journal of Agricultural Science 53 (3/4). - p. 281 - 300. Bosma, R.H.; Udo, H.M.J.; Verreth, J.A.J.; Visser, L.E.; Nam, C.Q. (2006) Agriculture diversification in the Mekong Delta: Farmers' motives and contributions to livelihoods Asian journal of agriculture and development 2 (1&2). - p. 49 - 66. Bruininx, E.M.A.M.; Schellingerhout, A.B.; Binnendijk, G.P.; Peet-Schwering, C.M.C. van der; Schrama, J.W.; Hartog, L.A. den; Everts, H.; Beynen, A.C. (2004) Individually assessed creep food consumption by suckled piglets: influence on post-weaning food intake characteristics and indicators of gut structure and hind-gut fermentation Animal Science 78 (1). - p. 67 - 75. Calker, K.J. van; Berentsen, P.B.M.; Boer, I.J.M. de; Giesen, G.W.J.; Huirne, R.B.M. (2004) An LP-model to analyse economic and ecological sustainability on Dutch dairy farms: model presentation and application for experimental farm "de Marke" Agricultural Systems 82 (2). - p. 139 - 160. Eilers, C.H.A.M.; Koops, W.J. (2004) Introduction and development of new production systems with non-traditional animal species. (With special reference to iguana production in Panama) Outlook on Agriculture 33 (2). - p. 113 - 123. Eits, R.M.; Giesen, G.W.J.; Kwakkel, R.P.; Verstegen, M.W.A.; Hartog, L.A. den (2005) Dietary balanced protein in broiler chickens. 2. An economic analysis British Poultry Science 46 (3). - p. 310 - 317. Eits, R.M.; Kwakkel, R.P.; Verstegen, M.W.A.; Hartog, L.A. den (2005) Dietary balanced protein in broiler chickens. 1. A flexible and practical tool to predict dose-response curves British Poultry Science 46 (3). - p. 300 - 309. Groenestein, C.M.; Hartog, L.A. den; Metz, J.H.M. (2006) Potential ammonia emissions from straw, slurry pit and concrete floor in a group housing system for sows Biosystems Engineering 95 (2). - p. 235 - 243. Guo, F.; Williams, B.A.; Kwakkel, R.P.; Li, H.S.; Li, X.P.; Luo, J.Y.; Li, W.K.; Verstegen, M.W.A. (2004) Effects of mushroom and herb polysaccharides, as alternative for an antibiotic, on the cecal microbial ecosystem in broiler chickens Poultry Science 83 . - p. 175 - 182. Halberg, N.; Werf, H.M.G.; Basset-Mens, C.; Dalgaard, P.; Boer, I.J.M. de (2005) Environmental assessment tools for the evaluation and improvement of European livestock production systems Livestock Production Science 96 (1 spec.iss). - p. 33 - 50. Hambrecht, E.; Eissen, J.J.; Klein, W.J.H.; Ducro, B.J.; Smits, C.H.M.; Verstegen, M.W.A.; Hartog, L.A. den (2004) Rapid chilling cannot prevent inferior pork quality caused by high preslaughter stress Journal of Animal Science 82 (2). - p. 551 - 556. 102 WIAS Midterm Review 2007 Animal Production Systems Hambrecht, E.; Eissen, J.J.; Nooijen, R.I.J.; Ducro, B.J.; Smits, C.H.M.; Hartog, L.A. den; Verstegen, M.W.A. (2004) Preslaughter stress and muscle energy largely determine pork quality at two commercial processing plants Journal of Animal Science 82 . - p. 1401 - 1409. Hambrecht, E.; Eissen, J.J.; Newman, D.J.; Smits, C.H.M.; Hartog, L.A. den (2005) Negative effects of stress immediately before slaughter on pork quality aggravated by suboptimal transport and lairage conditions Journal of Animal Science 83 (2). - p. 440 - 448. Hambrecht, E.; Eissen, J.J.; Newman, D.J.; Smits, C.H.M.; Verstegen, M.W.A.; Hartog, L.A. den (2005) Preslaughter handling effects on pork quality and glycolytic potential in two muscles differing in fiber type composition Journal of Animal Science 83 (4). - p. 900 - 907. Hartog, L.A. den (2005) Global perspective on integrated pork production Pig News and Information 26 (3). - p. 73N - 77N. Kosgey, I.S.; Baker, R.L.; Udo, H.M.J.; Arendonk, J.A.M. van (2006) Successes and failures of small ruminant breeding programmes in the tropics: a review Small Ruminant Research 61 (1). - p. 13 - 28. Krimpen, M.M. van; Kwakkel, R.P.; Reuvekamp, B.F.J.; Peet-Schwering, C.M.C. van der; Hartog, L.A. den; Verstegen, M.W.A. (2005) Impact of feeding management on feather pecking in laying hens World's Poultry Science Journal 61 (4). - p. 663 - 686. Mollenhorst, H.; Boer, I.J.M. de (2004) Identifying sustainability issues using participatory SWOT analysis - A case study of egg production in the Netherlands Outlook on Agriculture 33 (4). - p. 267 - 276. Mollenhorst, H.; Rodenburg, T.B.; Bokkers, E.A.M.; Koene, P.; Boer, I.J.M. de (2005) On-farm assessment of laying hen welfare: a comparison of one environment-based and two animal-based methods Applied Animal Behaviour Science 90 (3-4). - p. 277 - 291. Mollenhorst, H.; Woudenbergh, C.J. van; Bokkers, E.G.M.; Boer, I.J.M. de (2005) Risk factors for Salmonella enteritidis infections in laying hens Poultry Science 84 (8). - p. 1308 - 1313. Mollenhorst, H.; Berentsen, P.B.M.; Boer, I.J.M. de (2006) On-farm quantification of sustainability indicators: an application to egg production sytems British Poultry Science 47 (4). - p. 405 - 417. Peet-Schwering, C.M.C. van der; Kemp, B.; Plagge, J.G.; Vereijken, P.F.G.; Hartog, L.A. den; Spoolder, H.A.M.; Verstegen, M.W.A. (2004) Performance and individual feed intake characteristics of group-housed sows fed a nonstarch polysaccharides diet ad libitum during gestation over three parities Journal of Animal Science 82 (4). - p. 1246 - 1257. Peet-Schwering, C.M.C. van der; Kemp, B.; Binnendijk, G.P.; Hartog, L.A. den; Vereijken, P.F.G.; Verstegen, M.W.A. (2004) Effects of additional starch or fat in late-gestating high nonstarch polysaccharide diets on litter performance and glucose tolerance in sows Journal of Animal Science 82 (10). - p. 2964 - 2971. Rodenburg, T.B.; Koene, P.; Bokkers, E.A.M.; Bos, M.E.H.; Uitdehaag, K.A.; Spruijt, B.M. (2005) Can short-term frustration facilitate feather pecking in laying hens? Applied Animal Behaviour Science 91 (1-2). - p. 85 - 101. Schiere, J.B.; Joshi, A.L.; Seetharam, A.; Oosting, S.J.; Goodchild, A.V.; Deinum, B.; Keulen, H. van (2004) Grain and straw for whole plant: implications for crop management and genetic improvement strategies Experimental Agriculture 40 (3). - p. 277 - 294. 103 WIAS Midterm Review 2007 Animal Production Systems Schoonhoven, A.D.; Holmann, F.; Argel, P.; Ordoñez, J.C.; Chaves, J (2006) Estimation and comparison of benefits due to feeding hay and silage during the dry season on commercial dualpurpose cattle production systems in Honduras and Costa Rica Livestock Research for Rural Development 18 (1). Sidibe, M.; Boly, H.; Lakouetené, T.; Leroy, P.; Bosma, R.H. (2004) Characteristics of peri-urban dairy herds of Bobo-Dioulasso (Burkina Faso) Tropical Animal Health and Production 36 (204). - p. 95 - 100. Thomassen, M.A.; Boer, I.J.M. de (2005) Evaluation of indicators to assess the environmental impact of dairy production systems Agriculture, Ecosystems and Environment 111 (1-4). - p. 185 - 195. Udo, H.M.J.; Asgedom, A.H.; Viets, T.C. (2006) Modelling the impact of interventions on the dynamics in village poultry systems Agricultural Systems 88 (2-3). - p. 255 - 269. Wagenberg, A.V. van; Metz, J.H.M.; Hartog, L.A. den (2005) Methods for evaluation of the thermal environment in the animal occupied zone for weaned piglets Transactions of the ASAE 48 (6). - p. 2323 - 2332. Scientific articles in other journals Geerlings, E. (2004) The black sheep of Rajasthan Seedling . - p. 11 - 17. Refereed book chapters Bokkers, E.A.M. (2006) Effects of interactions between humans and domesticated animals In: Farming for health / Hassink, J,, Van Dijk, M,, . - Dordrecht : Springer, (Wageningen UR Frontis series 13) - p. 31 - 41. Mollenhorst, H.; Boer, I.J.M. de (2004) Sustainable development of egg production systems: It's not only welfare that counts In: Welfare of the laying hen / G.C.Perry,, . - Oxfordshire : CABI Publishing, (Poultry Science Symposium Series ) - p. 399. Monographs Zijpp, A.J. van der; Braker, M.J.E.; Eilers, C.H.A.M.; Kieft, H.; Vogelzang, T.A.; Oosting, S.J. (2004) Foot and Mouth Disease. New values, innovative research agendas and policies Wageningen : Wageningen Academic Publishers, (EAAP Technical Series 5) - p. 69. Proceedings (Full papers only) Bokkers, E.A.M.; Boer, I.J.M. de (2006) Animal welfare measures in broiler production and their economic, ecological and societal consequences In: Proceedings of the 40th International Congress of the ISAE, International Society for Applied Ethology, Bristol, England, 8-12 August 2006. - ISAE Scientific Committee, - p. 138 - 138. Boogaard, B.K.; Oosting, S.J.; Bock, B.B. (2006) Socio-cultural issues of dairy production systems in The Netherlands: Results of farm visits with six citizen panels In: Changing European farming systems for a better future : New visions for rural areas. - Wageningen : Wageningen Academic Publishers, - p. 1. Boogaard, B.K.; Oosting, S.J.; Bock, B.B. (2006) Importance of emotional experiences for societal perception of farm animal welfare: A quantitative study in the Netherlands In: Ethics and the Politics of Food. - Wageningen : Wageningen Academic Publishers, - p. 512 - 518. Bosma, R.H.; Nam, C.Q.; Duc, P.M.; Udo, H.M.J.; Verreth, J.A.J. (2004) Motivation of farmers in the Vietnamese Mekong Delta to integrate aquaculture in their production system In: Wong et al,2004. New dimensions and challenges for sustainable livestock farming. Proc.11th AAAP congres Kuala Lumpur, 5-9 Sept.2004 Vol III pp419-422. - 104 WIAS Midterm Review 2007 Animal Production Systems Bosma, R.H.; Cao Quoc Nam, H.; Udo, H.M.J.; Verreth, J.A.J. (2005) Don't accumulate but integrate farm components for higher profits In: Integrating Livestock-Crop Systems to Meet the Challenges of Globalisation. Proc.AHAT/BSAS Int.Conf.,Nov.14-18, 2005, Khon Kaen, Thailand. - British Society of Animal Science, - p. T58. Bosma, R.H.; Kaymak, U.; Berg, J. van den; Udo, H.M.J. (2005) Fuzzy Modelling of Farmer Motivations for Integrated Farming in the Vietnamese Mekong Delta In: Proceedings of the 14th IEEE International Conference on Fuzzy Systems, May 22-25, 2005 Reno, Nevada. IEEE Publications Office, Los Alamitos, USA, - p. 827 - 832. Bosma, R.H.; Berg, J. van den; Kaymak, U.; Udo, H.M.J.; Verreth, J.A.J. (2006) Using fuzzy logic to simulate the composition of farming systems in the Mekong Delta In: Animal production and sustainable agriculture in the tropic. Part 2. Supporting papers. Proc. 4th ISTAP, 8-9 november 2006. - , Indonesia : - p. 484 - 494. Bosma, R.H.; Phong, L.T.; Berg, J. van den; Kaymak, U.; Udo, H.M.J.; Verreth, J.A.J. (2006) Using fuzzy logic to simulate the composition of farming systems in the Mekong Delta In: Proc. of The 4th International Seminar on Tropical Animal Production, Yogjakarta, 2006. - Yogjakarta : Faculty of Animal Science Gadja Mada University, - p. 484 - 494. Budisatria, I.G.S.; Udo, H.M.J.; Zijpp, A.J. van der; Baliarti, E. (2005) Physical production and socio-economic valuation of sheep and goats in different agro-ecologicl zones in Yogyakarta-Indonesia In: Proceedings Integrated Livestock-Crop Systems to Meet the Challenges of Globalisation, 2005. - British Society of Animal Science, Budisatria, I.G.S.; Murti, T.W.; Baliarti, E.; Udo, H.M.J.; Zijpp, A.J. van der (2006) Sustainability concerns of small ruminant production systems in different agro-ecological zones in Yogjakarta, Indonesia In: Animal production and sustainable agriculture in the tropic. Part 2. Supporting papers. Proc. 4th ISTAP, Yogjakarta, Indonesia, 8-9 november 2006. - Yogjakarta : Gede Suparta Budisatria, I.; Udo, H.M.J.; Zijpp, A.J. van der; Murti, T.W.; Baliarti, E. (2004) Air and water qualities around small ruminant houses in Central Java, Indonesia. In: Proceedings 11th AAAP Congress 2004 Vol. II, 5-9 September 2004 Kuala Lumpur. - Kuala Lumpur : Geerlings, E.; Wolfert, J. (2006) Accenten in lerende netwerken bij de aanpak van een vernieuwing In: Living Labs - Lerende netwerken in de landbouw, voeding en groene ruimte, 15e VIAS symposium, 30 november 2006, Wageningen. - Agro-informaticareeks 2006 (15). - p. 47 - 57.Wageningen : VIAS, - p. 47 - 57. Halberg, N.; Werf, H.M.G.; Boer, I.J.M. de (2004) Environmental assessment tools for the evaluation and improvement of European livestock production systems In: Book of Abstracts No. 10. - Bled, Slovenia : - p. 350 - 350. Hartog, L.A. den (2004) Agrarische bedrijfsadvisering: veehouderij, klaar voor de toekomst In: Seminar PHLO, Wageningen, 9-10 December 2004. - Wageningen : - p. 4. Hartog, L.A. den (2004) Toekomst van de veehouderij In: Proceedings Agrivaknet Symposium, Wageningen, 2004. - Wageningen : - p. 105 - 111. Hartog, L.A. den (2004) Developments in global pig production. In: Advances in pork production. - Banff, Canada : - p. 1 - 5. Hartog, L.A. den; Smits, C.H.M. (2005) Estrategias de alimentacion y manejo para alcanzar la uniformidad y calidad deseadas en porcino In: Proceedings Fundacion Espanol para el desarrollo de la nutricion animal (FEDNA), Madrid 2005. - Madrid : - p. 326 - 339. Hartog, L.A. den (2005) Beyond the ban on antimicrobial growth promoters In: Proceedings Agrivision Conference, Noordwijk, 2005. - Noordwijk : 105 WIAS Midterm Review 2007 Animal Production Systems Hartog, L.A. den (2005) Quality assurance in poultry production In: Book of abstracts. Symposium on quality of meat, eggs and egg products Doorwerth, The Netherlands, 2005. - Doorwerth : - p. 177 - 177. Hartog, L.A. den; Sijtsma, R. (2005) Quality approaches in consumer-driven poultry meat production In: Proc. 17th European symposium on the quality of poultry meat, Doorwerth, 2005. - Doorwerth, the Netherlands : - p. 368 - 369. Hartog, L.A. den; Gutierrez del Alamo Oms, A.; Doorenbos, J.; Flores Minambres, A. (2005) The effect of natural alternatives for anti-microbial growth promoters in broiler diets In: Proceedings 15th European symposium on poultry nutrition, Balatonfüred, Hungary, 2005. - Balatonfüred, Hungary : - p. 212 - 220. Hartog, L.A. den (2005) Global perspective on integrated pork production In: Proceedings London Swine Conference 2005. - Ontario : - p. 97 - 103. Hartog, L.A. den (2005) Innovacion en produccion porcina In: Proceedings XII th Convencion Hypor. La Toja, Spain. Hartog, L.A. den (2006) Trends in animal production In: Proceedings 3rd International Farmers day. Kikoto, Hungary, 2006. - Kikoto, Hungary : - p. 1 - 12. Hartog, L.A. den (2006) Food safety in animal production In: Proceedings Fundisa conference, Madrid. - Madrid, Spain : - p. 1 - 4. Hartog, L.A. den; Smits, C.H.M. (2006) Developments in sow and piglet nutrition In: Proceedings Conference Chinese Association of Animal Science and Veterinary Medicine, Beijing, China, 2006. - Bejing, China : - p. 40 - 46. Hartog, L.A. den; Smits, C.H.M. (2006) Feeding strategy of sows and piglets In: Proc. 1st Int. Animal Health, Genetics and Nutrition Congress, Manilla, Philippines. - Manilla, Philippines : - p. 83 - 85. Hartog, L.A. den (2006) Marktkansen voor de Nederlandse agrofood sector In: Proceedings SBO symposium, Leiden, 2006. - Leiden : - p. 2. Hartog, L.A. den (2006) Research and Development in western Europe In: Proceedings Conference Chinese Association of Animal Science and Veterinary Medicine, Beijing, China, 2006. - Bejing, China : - p. 1 - 4. Hartog, L.A. den; Sijtsma, R. (2006) Product for aimal and fish nutrition: are co-products still an option? In: Proceedings 2006 EFFOST Annual Meeting, The Hague. - The Hague : - p. 36 - 37. Hartog, L.A. den; Smits, C.H.M. (2006) Estrategias de alimentacion y manejo para alcanzar la uniformidad y calidad deseadas en porcino In: Avances III Julio-Agosto:. Jong, D. de; Oosting, S.J.; Boogaard, B.K. (2006) Socio-cultural values of Dutch dairy systems: Case studies in the Krimpenerwaard and the Alblasserwaard on farm and landscape level In: Changing European farming systems for a better future : New visions for rural areas. - Wageningen : Wageningen Academic Publishers, - p. 1. 106 WIAS Midterm Review 2007 Animal Production Systems Kassa, A.M.; Oosting, S.J.; Fernandez-Rivera, S. (2006) Fodder trees utilization and constraints to adoption in the Ethiopian highlands In: Proc. 57th EAAP Conference , Antalya, Turkey, 2006. - Antalya, Turkey : - p. 252 - 252. Mollenhorst, H.; Boer, I.J.M. de (2004) Assessing sustainable development of egg production systems In: Proceedings of the XXII World's Poultry Congress, Istanbul, 8-13 June 2004. - Istanbul : WPSA, Mollenhorst, H.; Boer, I.J.M. de (2006) Development of a methodology for assessing sustainable development in egg production In: Livestock farming systems / EAAP publication No. 118 / Benevento It.. - Wageningen : Wageningen Academic Publishers, - p. 335 - 340. Nielsen, A.M.; Mila I. Canals, L.; Boer, I.J.M. de; Weidema, B.; Halsberg, N. (2005) Environmental competitiveness of pig production on the global market In: Proceedings of the 2nd international conference on Life Cycle Management, Barcelona 2005. - Barcelona, Spain : Oosting, S.J. (2004) Dairy farming in the Netherlands: challenged by demands for ecological and societal sustainability In: 12th International Symposium Animal Science Days. - Acta Agriculturae Slovenica 1 (suppl. 1). - p. 47 - 55. Oosting, S.J.; Sol, A.J.; Kalogeras, N. (2006) Marketing of agricultural products: strengthening of regional and socio-cultural values in the Netherlands and of bulk production values in Greece In: Livestock farming systems / EAAP publication No. 118. - Wageningen : Wageningen Academic Publishers, p. 109 - 115. Oudshoorn, F.W.; Boer, I.J.M. de; Renes, R.J. (2005) Sustainability Aspects of Automatic Milking Systems (AMS) in Organic Dairy Production in Denmark and the Netherlands In: Researching Sustainable Systems. Proceedings of the First Scientific Conference of the International Society of Organic Agriculture Research (ISOFAR), Held in Cooperation with the International Federation of Organic Agriculture Movements (IFOAM) and the National Association for Sustainable Agriculture, Australia (NASAA), Adelaide, Australia, 21-23 September 2005. - Adelaide, Australia : - p. 600 - 604. Oudshoorn, F.W.; Boer, I.J.M. de (2005) Survey of the sustainability aspects of Automatic Milking Systems (AMS) in organic dairy production In: Proceedings of the Second European Conference on Precision Livestock Farming (2ECPLF), Uppsala 2005. - Uppsala, Sweden : Wageningen Academic Publisher, Phong, L.T.; Udo, H.M.J.; Mensvoort, M.E.F. van; Le Quang Tri, --; Bosma, R.H.; Nhan, D.K. (2004) Understanding integrated agriculture-aquaculture systems in the Mekong Delta, Vietnam In: Proceedings 11th AAAP Congress 2004 Vol. III, Kuala Lumpur, Malaysia, 5-9 September 2004. - Kuala Lumpur, Malaysia : Phong, L.T.; Udo, H.M.J.; Mensvoort, M.E.F. van; Le Quang Tri, --; Bosma, R.H. (2005) Dynamics of Integrated Agriculture-Aquaculture Systems in the Vietnamese Mekong Delta In: Proceedings Integrated Livestock-Crop Systems to Meet the Challenges of Globalisation, AHAT/BSAS International Conference, Khon Kaen, 14-18 November 2005. - Khon Kaen : British Society of Animal Science, p. 150 - 151. Rijnen, M.M.J.A.; Doorenbos, J.; Mallo, J.J.; Hartog, L.A. den (2004) The application of the net energy system for swine In: Proceedings Western Nutrition Conference, Saskatoon, Saskatchewan, Canada, 28-30 September 2004. Saskatchewan, Canada : - p. 1 - 16. Samdup, T.; Udo, H.M.J. (2004) Sustainability prospects of smallholder mixed farming systems in Bhutan: The Baro-amoeba approach In: Proceedings 11th AAAP Congress 2004 Vol. II, Kuala Lumpur, Malaysia, 5-9 September 2004. - Kuala Lumpur : 107 WIAS Midterm Review 2007 Animal Production Systems Sutresniwati, S.; Steenstra, F.A.; Udo, H.M.J. (2006) The invasion of crossbred cattle: stakeholders' perspectives in Central Java, Indonesia In: Animal production and sustainable agriculture in the tropic. Part 2. Supporting papers. Proc. 4th ISTAP, Yogjakarta, Indonesia, 8-9 november 2006. - Yogjakarta : - p. 461 - 466. Thomassen, M.A.; Boer, I.J.M. de (2006) Life Cycle Assessment of milk production systems in the Netherlands In: Proc. 2nd International Conference on Quantified Eco-efficiency Analysis for Sustainability, Egmond aan Zee, 28-30 June 2006. - Egmond aan Zee, The Netherlands : - p. 51 - 51. Widi, T.S.; Udo, H.M.J.; Steenstra, F.A.; Gede Suparta Budisatria, I.; Baliarti, E. (2004) Livestock sharing arrangements: an alternative opportunity for farmers to rear cattle (a case study in the province of Yogyakarta Special Region). In: Proceedings 11th AAAP Congress 2004 Vol. II, Kuala Lumpur, 59 September 2004. - Kuala Lumpur : Woudenbergh, C.J. van; Mollenhorst, H.; Bokkers, E.G.M.; Boer, I.J.M. de (2004) Food safety regarding egg production In: Proceedings of the XXII World's Poultry Congress. - Istanbul : WPSA, Zijpp, A.J. van der; Mollenhorst, H.; Berentsen, P.B.M.; Boer, I.J.M. de (2006) Alternatives for the battery cage system: a comparison of economic, environmental and societal performance In: Proceedings of the 12th European Poultry Conference, Verona, Italy, 10-14 September 2006. - World's Poultry Science Journal 62 (suppl.). - p. 587 - 588.Verona : WPSA Italy, - p. 587 - 588. Zijpp, A.J. van der; Phong, L.T.; Budisatria, I.G.S.; Udo, H.M.J. (2006) Policy Implications for Mixed Farming Systems in Indonesia and Vietnam In: Proc. International Conference on Livestock Services, Beijing, China, 17 - 19 April, 2006. - Beijing, China : - p. 267 - 271. Zijpp, A.J. van der; Phong, L.T.; Budisatria, I.G.S.; Udo, H.M.J. (2006) Livestock and sustainable development: From Research to Innovation In: Proc. of The 4th International Seminar on Tropical Animal Production, Yogjakarta 2006. - Yogjakarta : Faculty of Animal Science Gadja Mada University, - p. 11 - 17. Zijpp, A.J. van der; Mollenhorst, H.; Berentsen, P.B.M.; Boer, I.J.M. de (2006) Alternatives for the battery cage system: a comparison of economic, environmental and societal performance In: EPC2006, 12th European Poultry Conference, Verona, Italy, 10-14 September 2006. - WPSA, Italy, Scientific reports Krimpen, M.M. van; Kwakkel, R.P.; Andre, G.; Peet-Schwering, C.M.C. van der; Hartog, L.A. den; Verstegen, M.W.A. (2006) Effect of nutrient density, NSP source, coarseness of NSP and feed form on performance and behaviour of hens at early lay. Wageningen : ASG, Wageningen UR, (Report / Animal Sciences Group 09) - p. 62. Krimpen, M.M. van; Kwakkel, R.P.; Andre, G.; Peet-Schwering, C.M.C. van der; Hartog, L.A. den; Verstegen, M.W.A. (2006) Effect of energy content, NSP content and coarseness of NSP on feather pecking, eating behaviour and performance of laying hens Wageningen : ASG, Wageningen UR, Professional publications and products (incl. patents) Backus, G.B.C.; Hartog, L.A. den; Enting, J.; Hermans, C.M.L.; Vries, C. de (2004) Bewegingsruimte voor ondernemers; tien belemmeringen in wet- en regelgeving voor de veehouderij. Wageningen : Wageningen Universiteit, - p. 32. Bokkers, E.A.M. (2005) Welzijnsmonitoring van twee groepshuisvestingssystemen voor witvleeskalveren met behulp van de TGI-200 wageningen : Wageningen Universiteit, - p. 13. Bokkers, E.A.M. (2005) Motivation and ability to walk for a food reward in broilers Noldus News 12 (3). 108 WIAS Midterm Review 2007 Animal Production Systems Boogaard, B.K.; Bock, B.B. (2006) Knuffeldier of Knakworst? : meningen van Nederlanders over dierenwelzijn in de veehouderij BLIND! : interdisciplinair tijdschrift 2006 (9). Bosma, R.H.; Le, H.B.; Vu, H.Y.; Roothaert, R.L. (2004) Financial and social benefits from introduction of improved forages in Tuyen Quang, Vietnam Seafrad News 14 . - p. 2 - 3. Hartog, L.A. den; Backus, G.B.C.; Enting, I.; Hermans, T.; Vries, C. de (2004) Bewegingsruimte voor ondernemers: tien belemmeringen in wet- en regelgeving voor de veehouderij. Lsg Dierlijke productiesystemen, - p. 32. Mollenhorst, H. (2005) De beste opvolger : huisvesting na de legbatterij De Pluimveehouderij 35 (42). - p. 12 - 13. Sol, J.; Oosting, S.J.; Hesselink, E.; Baken, A. (2004) Samenwerking in het Zuidelijk Westerkwartier Wageningen : Wageningen UR, Thomassen, M.A.; Boer, I.J.M. de; Smits, M.; Iepema, G. (2006) Milieubelasting melkveebedrijf stopt niet bij de erfgrens Koeien en kansen nieuwsbrief (2006-12-01). - p. 1. Thomassen, M.A.; Gravendijk, L.M. 's; Boer, I.J.M. de (2006) Levenscyclusanalyse (LCA) van Bioveem-bedrijven In: Vij jaar Bioveem : 17 strategieën voor een duurzame toekomst / Iepema, G., Beldman, A., Doornewaard, G., .Publications for the general public Boogaard, B.K. (2006) Met burgers de boer op! Resultaten van bedrijfsbezoeken met burgerpanels Wageningen : Wageningen UR, - p. 40. Boogaard, B.K.; Krogh, E. (2006) Folk til gards! : resultater fra gårdsbesøk med to grupper fra Vestfold Wageningen : Wageningen UR, Breukink, D.B.; Eilers, C.H.A.M. (2005) Want niet iedereen is Anky... Zeldzaam huisdier (1). - p. 11 - 14. Bruin, S.R. de (2006) Ouderen gaan de boer op Denkbeeld : tijdschrift voor psychogeriatrie 18 (6). - p. 30 - 32. 109 110 WIAS Midterm Review 2007 Aquaculture and Fisheries Aquaculture and Fisheries (AFI) 1. Reflection on previous peer review The previous peer review stated: “..group has focused hard in developing its strategic plan, recognizing that it lacked the critical mass …in a very broad disciplinary range”. The committee saw a risk in the departure of dr Komen, while the group had included genetics in its strategic plan. The committee recommended that “alongside its increased focus, it will be essential for the group to build its links with other WIAS research teams..”. Further the Committee stated that it “..sees a need for the leadership to be proactive in collaboration and in continuing pushing back the limits of knowledge”. It added.. “the refocusing could present a risk the group beginning to operate in its comfort zones”. The Chair group has spent much energy in further defining its research strategy, with the following 3 objectives: (a) to work at the forefront of science; (b) to work in highly profiling and societal relevant areas for its domains; (c) to further reduce the dispersed character of its activities. The central research focus of AFI is the interaction between fish and the production environment for both natural and man-made systems. o In the area of fisheries, AFI investigates the resilience of fish communities to maninduced changes in the ecosystems, because of exploitation (capture fisheries), eutrophication, coastal land-use, water management, climate change etc. The frontier of science is searched by a quest for the mechanisms behind these interactions between exploitation and man-induced changes in the environment. The profile and societal relevance is searched by addressing questions in ecosystems/themes which are in the international spotlight of societal debate (e.g., Lake Victoria Nile perch fisheries; big riverine systems such as Wolga, Mekong, sensitive coastal marine ecosystems as Berau (E Kalimantan) and Ca Mau (Vietnam), etc) and by developing an “AFI” approach which best can be described as a combination of observational analysis, sophisticated (multivariate) statistics and modelling with a focus on spatial information. o In the area of aquaculture, AFI investigates how the quality of the rearing environment affects the vitality of the farm animal and vice versa, how production design and operations influence the rearing environment. Changes in dietary composition, genetic make-up, and husbandry conditions determine how animals digest the feeds, the intestinal physiology and ultimately, the quantity and quality of the waste being produced. Since this waste determines the quality of the (rearing) environment, within-system processing of these waste products mitigate possible negative effects for the animal and reduces environmental impact of farming. This adaptive physiological approach is very new for aquaculture and focuses more on the mechanisms than on the practices. The profile is searched by addressing the questions in collaborative projects in highly profiled international consortia and/or to sectors which are in the spotlights of the international interest (e.g., Pangasius culture; shrimp culture; tilapia culture; welfare in fish farming). These actions should guarantee that AFI research remains at the frontier of science. We spent much energy in developing inter- and multi-disciplinary research programmes, leading to a wide array of collaborations, in- and outside WIAS. In this way we hope to maintain our own disciplinary focus and still be capable to respond to the emerging research needs in our working domains. o Within WIAS, AFI seeked collaboration with the Chair groups CBI and with QVE and recently also with HPI, to cater for the demand from society and students for a 111 WIAS Midterm Review 2007 Aquaculture and Fisheries specialization in Aquatic Animal Health. With ABG collaboration in the field of genetics and selective breeding exists already for a long time. With APS, collaboration exists in the field of sustainable development and assessment of sustainability. Four of our PhDs are now shared with these groups. In the area of sustainability assessment, we took the initiative to search collaboration and develop a PhD program with APS. o Outside WIAS, AFI developed strategic linkages with IMARES and the Chair groups AEW, REG and GRS (for the ecology and coastal/marine area), with the Chair Group PRE (for our desired expansion to non-food animals, eg. Corals) and with the Chair Groups RDS, ENP, LAW, and BEC for its interest in interdisciplinary research on sustainable development. With all these Groups, PhDs are shared or plans for such are submitted. o Outside WU(R): As a first step, in the period 2004-2006, most efforts were used to launch a research infrastructure for our ecology and fisheries team. We acquired and started the N.W.O. – WOTRO Research program on the WOLGA river (together with IMARES and the Univ. of Utrecht); we acquired the competitive WU-INREF program RESCOPAR where both fisheries and aquaculture staff will be involved in, and recently, a multidisciplinary Integrated Program project on Lake Victoria was approved by WOTRO. As a second step, in the period 2007-2009 attention will return to aquaculture. In the future, our core research theme will be the animal-environment interaction in intensive farming; how this affects individual variation and vice versa, how it can be used to improve the environmental embedding of aquaculture. Its implementation is taking up a set of acquisition efforts: (a)2 Marie Curie ITN pre-projects have been formulated, both with a strong embedding and involvement of other WIAS teams; one of these ITN preproposals (“EMMA”) has been selected for a full proposal and has been submitted medio September 2007 with 3 other WIAS and 2 other WU-teams involved; (b)the concept of a “WUR-INRA platform on Aquaculture” has been accepted by the Boards of both organizations and a detailed proposal is currently being developed; (c)a strategic linkage with IMARES-division Aquaculture is under construction and (d)a strategic linkage with the universities of Gent and Trondheim is developed for our international cooperation in China and in Vietnam and for joined actions in EU (example: calls for Erasmus Mundus; the Marie Curie ITN full proposal; a IP call in FP7 for 2008). The increased focus on multi- and inter-disciplinary research whereby new cross-boundary research between quite unrelated disciplines are taken up implies that we are entering areas of research which haven’t been explored much. This is quite audacious, and the risk of operating in “comfort zones” is therefore unrealistic. Examples areects:. hydrology and ecology in the WOLGA project; GIS and fisheries management in the INREF-Rescopar project; and overall a strong beta-gamma interaction in Rescopar and the Lake Victoria Nile Perch program. In addition, and in response to specific comments of the previous peer review, we decided to stop AFI research in genetics and to develop the latter only through collaboration with ABG. 2. Research input The major difference with the previous review period is a significant (30%) reduction in senior, tenured staff. Next, the current period is characterized by mobility in the scientific staff, with some members temporarily or part-time leaving the group, with consequently temporary new staff members coming in and leaving again. Finally, few new PhD students entered the group during the current period, due to the financial restrictions of our historical 112 WIAS Midterm Review 2007 Aquaculture and Fisheries target groups, and to the above mentioned fluidity in staff. The intensified efforts in building strategic linkages and opening new research windows have resulted in the acquisition of new larger research programmes, and it is expected that in the coming two years, the dip in PhD students will be eliminated. Table 2.1 Research staff Name and present title Full professors Period of appointment Start End Sep 2000 Jan 2005 Jun 2006 Jan 2003 Sep 2004 July 2005 Aug 2000 Mar 2004 Feb 2006 Sep 2005 Oct 2005 Jan 2005 June 2003 Sep 2001 Jan 2005 Jan 2005 Oct 2003 Jan 2007 Feb 2004 Jun 2005 Sep 2006 Fte* Coll. Dr. J.A.J. Verreth 1.0 Dr. J. de Boer 0.0 Associate professors Dr J.W. Schrama 1.0 Assistant professor Dr J. Komen 1.0 Dr M.A.M. Machiels 1.0 Dr L.A.J. Nagelkerke 1.0 Dr V. Sereti 0.6 Dr M.A.M. Verdegem 0.5 Dr M.A.M. Verdegem 1.0 Ir P.A.M. van Zwieten 0.5 Non-tenured staff Ir R.H. Bosma 0.8 Ir P.A.M. van Zwieten 0.8 Ir P.A.M. van Zwieten 0.3 Dr J. I. Leenhouwers 0.8 Dr V. Sereti 1.0 Dr R. Osinga 0.8 Dr C.I. de Matos Martins 1.0 PhD students Ing. E.H. Eding Employed Sep 1997 Jan 2002 1.0 M.J.M. Rutten Dec 2000 May 2005 1.0 ABG O. Schneider Jan 2002 May 2006 pm R. Bosma (see above) 2004 pm APS,EUR P. van Zwieten (see above) Jan 2005 1.0 P.G. van de Nieuwegiessen May 2004 1.0 M. Schutter June 2005 1.0 PRE K. Górski Jan 2006 1.0 Guest C.I. de Matos Martins Mar 2001 Oct 2005 1.0 A.K. Amirkolaie Jul 2001 Oct 2005 1.0 B. Torres-Beristain Sep 2001 Apr 2005 1.0 P. A. Urán Carmona May 2003 1.0 CBI M.A. Nematollahi Aug 2003 1.0 ABG G. de Abreu Santos Oct 2004 1.0 CBI Sandwich Mw. P.N. Muendo Feb 2002 Jun 2006 1.0 SIL Dang Kieu Nhan Feb 2002 Oct 2007 1.0 H. Charo Karisa Feb 2002 May 2006 1.0 ABG (Sep 2004, move to ABG) I.W. Tsehaye Jul 2002 Nov 2007 1.0 Y. Fessehaye Jul 2002 Dec 2006 1.0 ABG (Dec 2004, move to ABG) M.M. Rahman Nov 2002 Jun 2006 1.0 Tran Duy An Sept 2003 0.0 Châu Thi Tuyét Hanh Dec 2004 Dec 2006 1.0 External V.J.T. van Ginneken Mar 2004 Jun 2006 1.0 S. Uddin June 2005 Mar 2007 1.0 * fte regards the total appointment; tenured staff has approximately 40% available for research 113 WIAS Midterm Review 2007 Aquaculture and Fisheries Table 2.2 Research input in fte by staff, postdocs and PhD students Average 1999-2003 Tenured staff 3.2 2.5 2.5 2.0 Postdocs and other non-tenured staff 0.9 0.9 0.9 2.0 AIO/OIOs 1.5 1.9 2.3 3.2 Other PhD students * 5.2 4.6 3.2 5.4 Total 10.8 9.9 8.9 12.6 * research time of external and sandwich PhD students is counted only when spent in Wageningen 2004 2005 2006 Table 2.3 Research funding in fte by staff, postdocs and PhD students 2004 University funded NWO funded Contract funded Total 2.7 1.0 7.1 10.8 2005 2.5 1.0 6.5 9.9 2006 2.0 1.4 5.5 8.9 Average 1999-2003 3.3 1.7 7.6 12.6 3. Overview of the results In spite of the unstable staffing, the production output remained at the same, or even at a higher level than during the previous review period. The average annual number of PhD theses increased to 5, compared to 3-4 in the previous period. The other major shifts are more in the area of non-refereed reports/books and proceedings than at the level of the refereed papers (which would have been logic given the higher number of dissertations). Because of a temporary dip in new PhD entrants, a dip in output can be expected in the coming 2 years. Thereafter, the situation should improve again. Table 3.1 Publication output 2004 PhD theses Academic publications in refereed journals in other journals refereed book chapters non-refereed book chapters Monographs edited books and special issues proceedings (full papers only) scientific reports Total academic publications Professional publications and products (incl. IP) Publications for the general public Table 3.2 Number of publications per fte research input Per fte tenured staff Refereed journals Academic publications Per fte total research input Refereed journals Academic publications 1.9 2.8 2.2 5.0 2.6 3.7 1.6 2.4 2004 6.6 9.4 2005 8.8 20.0 2006 9.2 13.2 Average 1999-2003 10.2 15.5 5 21 0 0 0 0 0 8 1 30 8 1 2005 4 22 1 0 5 1 0 9 12 50 8 0 2006 6 23 0 0 1 2 0 6 1 33 3 0 Average 1999-2003 3.6 20.4 0.2 0 3.6 0 0 5.8 1 31 5 1 114 WIAS Midterm Review 2007 Aquaculture and Fisheries 4. Analysis, perspectives and expectations of the Chair group According to our own opinion, the achievements over the past period are positive. The research lines have deepened themselves towards more fundamental and conceptual questions, the output has remained at the same level or even higher than before, and new highly interesting and profiling collaborative initiatives have been formulated, were started or are underway. We believe that our efforts in searching focus, and at the same time, to search the frontier of science and international recognition in the dynamic world of our domains, is slowly producing result. It strengthens our conviction that we need to continue on the same path, focusing on large and coherent research programmes in stead of projects, and on longterm (inter)-national collaboration. Obviously, AFI is on its path in implementing its strategic plans but it hasn’t reached its destination yet. The earlier perceived high expectations of collaboration with IMARES may have been overestimated (difference in development of IMARES and AFI, from Environmental Sciences (IMARES) to Animal Sciences (AFI)). The continuing bottleneck of critical mass requires continued attention. The significant reduction in senior tenured staff puts a high strain on their time for non-research related tasks, and has resulted in a clear slowdown of writing new (PhD) proposals. Clearly, in the coming two years, much energy need to be put into the relation with IMARES and the acquisition of new/extra PhD and post-doc studies. 115 WIAS Midterm Review 2007 Aquaculture and Fisheries Strenghts • • • • • • • Weaknesses • • Opportunities • • • • • • Threats • • • Strong international profile and network, incl. industry, NGOs and multilateral organisations such as EU, FAO, NACA, World Fish Centre etc. Focus on concepts/mechanism behind practices Quality of senior staff with good acquisition capabilities, strong network Unique facilities (metabolic unit; fish accommodation) For domain Aquaculture: international reputation in RAS (Recirculation..) technology For domain Fisheries: strong expertise in tropical fisheries; international reputation in interdisciplinary and experimental/observational/quantitative approaches Unclear research profile o (until today): too much project inspired, leading to fragmentation o (sometimes unavoidable) broadness Too small in tenured senior staff Fragile financial position Interest in “Fish” and especially, aquaculture is booming European linkages with Universities of Gent/Trondheim and with INRA, providing opportunities for deepening our research to the frontier of science and alleviating some of the constraints mentioned under Threats and Weaknesses “Marine” Domain is priority area for WUR Growing expertise and profile in interdisciplinary and quantitative research Strategic linkages with IMARES, industry, EU, international networks; private/public partnerships Implementation of a MSc and a BSc Minor in Marine & Coastal Management Relative isolated position within Department and WUR (IMARES developing towards marine (restriction) and environmental (different) areas), leads to questions to which extent we can develop and implement our own strategy Small senior staffing and isolated position results in high transaction costs to achieve ambitions and reduced proposal writing ASG Policy with regard to the fincancial rules and with regard to the organisation of the Technical Workshop (on which we highly depend for our experimental setup) and to the Experimental Facilities (which are more as a laboratory for us than an accommodation) 116 WIAS Midterm Review 2007 Aquaculture and Fisheries Analysis Goals Strategy The newly developed common research theme for Aquaculture should be implemented soon by developing a baseline research funded by NWO type programme, and adjacent parallel external programmes for PhD studies, such as the INRA-WUR collaboration, and a WOTRO integrated programme on the Vietnamese Pangasius farming, which offers good possibilities for developing our ideas in this new core theme. Much energy need to be spend in developing PhD positions, using all possible means (EU proposals, NWO; scholarships etc) The opportunities offered by IMARES should be exploited by developing joined PhD training in the area of RAS (and nutrient-cycles) technology and above all, in fisheries. Target subjects for this are the possibilities for analysing fish community structures through a combination of organism based ecomorphology, analysis of foodweb structure and modelling. To strengthen its position within WIAS, AFI should try and develop fish-based research programmes in the area of fish health and welfare, whereby many other WIAS teams can be included. It seems crucial that AFI finds means to attract an extra senior staff member to strengthen the adaptive physiological expertise for this area of health & welfare (in intensive farming systems). • To develop a WOTRO IP on Pangasius and a Research programme in the area of interaction between feeds, fish performance, health and welfare and water quality in RAS • To develop a joined research programme with IMARES on the ecomorphological basis for our understanding of fish community structures in natural populations through a combined approach of experiments, field studies on food web analysis and modelling • To further develop and strengthen the axis of NTNU, Gent University, Wageningen and INRA for EU projects (Marie Curie, FP7 calls, Erasmus Mundus) and for international networking in China and Vietnam • To further develop the interdisciplinary expertise trough joined PhD proposals with social and economic Chairs, targeting the WUR MoUs with Chile, China, Brazil and India We generally want to further develop and implement the strategy we started just before the previous Peer Review, and which was adjusted based on the Peer Review in 2004. Main objectives thereby is to improve our general “rating” and this requires a higher output of research which receives more academic reward because of its position at the frontier of science. Because of our limited staff resources, we need to achieve this by collaboration with other disciplinary teams. This has been taken up strongly since 2004 and we want to go further on this line. Our main selling niches should be our position/expertise in the “operation” of RAS and farming based on closed water and nutrient cycles and our expertise in spatial aspects of the interaction between changes in ecosystem functions and the structure of fish communities. A main target of our strategy is to gain a leading position within the European academic world of Aquaculture and Fisheries (with the far end goal to attract more students). Strong international networking, top science and strategic alliances with other disciplines within WUR will thereby our strategy. One corner stone in this, is the appointment of 0.0 Chairs in different “fish” disciplines, currently not available in AFI. 117 WIAS Midterm Review 2007 Aquaculture and Fisheries Annex List of publications 2004-2006 PhD theses Almazán Rueda, P. (2004) Towards assessment of welfare in Africal catfish, Clarias gariepinus: the first step Wageningen Universiteit. Promotor(en): Verreth, Prof dr J.A.J., co-promotor(en): Schrama, Dr ir J.W.. - [S.l.] : [s.n.], - p. 152. Amirkolaie, A.K. (2005) Dietary carbohydrate and faecal waste in the Nile Tilapia (Oreochromis niloticus L.) WUR Wageningen UR. Promotor(en): Verreth, Prof dr J.A.J., co-promotor(en): Schrama, Dr ir J.W.. Wageningen : - p. 143. Bolhuis, J.E. (2004) Personalities in pigs: Individual characteristics and coping with environmental challenges WUR Wageningen UR. Promotor(en): Wiegant, Prof Dr V.M., co-promotor(en): Schouten, W.G.P.; Schrama, Dr ir J.W.. - [S.l.] : [s.n.], - p. 176. Bucio Galindo, A. (2004) Lactobacillus plantarum 44a as a live feed supplement for freshwater fish WUR Wageningen UR. Promotor(en): Rombouts, Prof dr ir F.M.; Verreth, Prof dr J.A.J., co-promotor(en): Hartemink, Dr ir R.. - Wageningen : A. Bucio, - p. 132. Charo-Karisa, H. (2006) Selection for growth of Nile tilapia (Oreochromis niloticus L.) in low-input environments Wageningen Universiteit. Promotor(en): Verreth, Prof dr J.A.J.; Arendonk, Prof dr ir J.A.M. van, copromotor(en): Komen, Dr ir J.. - [S.l. ] : [s.n.], - p. 169. El-Shafai, S.A.A.M. (2004) Nutrients valorisation via duckweed-based wastewater treatment and aquaculture Wageningen Universiteit. Promotor(en): Gijzen, Prof.dr. H.J.; El-Gohary, F., co-promotor(en): Verreth, Prof dr J.A.J.; Steen, P. van der. - [S.l.] : Balkema, - p. 174. Fessehaye, Y. (2006) Natural mating in Nile tilapia (Oreochromis niloticus L.) : implications for reproductive success, inbreeding and cannibalism WUR Wageningen UR. Promotor(en): Verreth, Prof dr J.A.J.; Arendonk, Prof dr ir J.A.M. van, copromotor(en): Komen, Dr ir J.; Bovenhuis, Dr ir H.. - [S.l.] : [s.n.], - p. 149. Ginneken, V.J.T. van (2006) Simulated migration of European eel (Anguilla anguilla, Linnaeus 1758) Wageningen Universiteit. Promotor(en): Verreth, Prof dr J.A.J., co-promotor(en): Thillart, Dr G.E.E.J.M.. [S.l. ] : [s.n.], - p. 309. Graaf, G.J. de (2004) Optimisation of the pond rearing of Nile tilapia (Oreochromis niloticus L.). The impact of stunting processes and recruitment control WUR Wageningen UR. Promotor(en): Huisman, Prof.dr. E.A.; Verreth, Prof dr J.A.J.. - [S.I.] : [s.n.], - p. 167. Matos Martins, C.I. de (2005) Individual variation in growth of African catfish Clarias gariepinus: a search for explanatory factors WUR Wageningen UR. Promotor(en): Verreth, Prof dr J.A.J., co-promotor(en): Schrama, Dr ir J.W.. Wageningen : - p. 166. 118 WIAS Midterm Review 2007 Aquaculture and Fisheries Muendo, P.N. (2006) The role of fish ponds in the nutrient dynamics of mixed farming systems Wageningen Universiteit. Promotor(en): Verreth, Prof dr J.A.J., co-promotor(en): Verdegem, Dr ir M.C.J.; Stoorvogel, Dr ir J.J.. - [S.l. ] : [s.n.], - p. 120. Rahman, M.M. (2006) Food web interactions and nutrients dynamics in polyculture ponds Wageningen Universiteit. Promotor(en): Verreth, Prof dr J.A.J., co-promotor(en): Verdegem, Dr ir M.C.J.; Nagelkerke, Dr ir L.A.J.. - [S.l. ] : [s.n.], - p. VIII, - 157. Rutten, M.J.M. (2005) Breeding for improved production of Nile tilapia (Oreochromis niloticus L.) WUR Wageningen UR. Promotor(en): Arendonk, Prof dr ir J.A.M. van; Verreth, Prof dr J.A.J., copromotor(en): Bovenhuis, Dr ir H.; Komen, Dr ir J.. - [S.I.] : [s.n.], - p. 122. Schneider, O. (2006) Fish waste management by conversion into heterotrophic bacteria biomass Wageningen Universiteit. Promotor(en): Verreth, Prof dr J.A.J., co-promotor(en): Sereti, Dr V.. - [S.l. ] : [s.n.], - p. 160. Torres Beristain, B. (2005) Organic matter decomposition in simulated aquaculture ponds WUR Wageningen UR. Promotor(en): Verreth, Prof dr J.A.J., co-promotor(en): Verdegem, Dr ir M.C.J.. - [S.I.] : [s.n.], - p. 138. Scientific articles in refereed journals Aarnink, A.J.A.; Schrama, J.W.; Heetkamp, M.J.W.; Stefanowska, J.; Huynh, T.T.T. (2006) Temperature and body weight affect fouling of pig pens Journal of Animal Science 84 . - p. 2224 - 2231. Alfaro Montoya, J.; Zuniga, G.; Komen, J. (2004) Induction of ovarian maturation and spawning by combined treatment of serotonin and a dopamine antagonist, spiperone in Litopenaeus stylirostris and Litopenaeus vannamei Aquaculture 236 (1-4). - p. 511 - 522. Almazán Rueda, P.; Schrama, J.W.; Verreth, J.A.J. (2004) Behavioural responses under different feeding methods and light regimes of the African catfish (Clarias gariepinus) juveniles Aquaculture 231 (1-4). - p. 347 - 359. Almazán Rueda, P.; Helmond, A.T.M. van; Verreth, J.A.J.; Schrama, J.W. (2005) Photoperiod affects growth, behaviour and stress variables in Clarias gariepinus Journal of Fish Biology 67 (4). - p. 1029 - 1039. Amirkolaie, A.K.; El-Shafai, S.A.A.M.; Eding, E.H.; Schrama, J.W.; Verreth, J.A.J. (2005) Comparison of faecal collection method with high and low quality diets regarding digestibility and faeces characteristics measurements in Nile tilapia Aquaculture Research 36 (6). - p. 578 - 585. Amirkolaie, A.K.; Leenhouwers, J.I.; Verreth, J.A.J.; Schrama, J.W. (2005) Type of dietary fibre (soluble versus insoluble) influences digestion, faeces characteristics and faecal waste production in Nile tilapia (Oreochromis niloticus L.) Aquaculture Research 36 (12). - p. 1157 - 1166. 119 WIAS Midterm Review 2007 Aquaculture and Fisheries Amirkolaie, A.K.; Verreth, J.A.J.; Schrama, J.W. (2006) Effect of gelatinization degree and inclusion level of dietary starch on the characteristics of digesta and faeces in Nile tilapia (Oreochromis niloticus (L.)) Aquaculture 260 (1-4). - p. 194 - 205. Azim, M.E.; Wahab, M.A.; Biswas, P.K.; Aseada, T.; Fujino, T; Verdegem, M.C.J. (2004) The effect of periphyton substrate density on production in freshwater polyculture ponds Aquaculture 232 (1-4). - p. 441 - 453. Azim, M.E.; Wahab, M.A.; Kamal, A.H.M.; Ahmed, Z.F.; Verdegem, M.C.J. (2004) Feeding relations of silver barb Barbodes gonionotus (Bleeker) with major Indian and common carp and its effect on fish production in a polyculture system World Aquaculture Society Journal 35 (1). - p. 100 - 108. Azim, M.E.; Rahaman, M.M.; Wahab, M.A.; Asaeda, T.; Little, D.C.; Verdegem, M.C.J. (2004) Periphyton-based pond polyculture system: a bioeconomic comparison of on-farm and on-station trials Aquaculture 242 (1-4). - p. 381 - 396. Bolhuis, J.E.; Schouten, W.G.P.; Leeuw, J.A. de; Schrama, J.W.; Wiegant, V.M. (2004) Individual coping characteristics, rearing conditions and behavioural flexibility in pigs Behavioural Brain Research 152 . - p. 351 - 360. Bolhuis, J.E.; Schouten, W.G.P.; Schrama, J.W.; Wiegant, V.M. (2005) Individual coping characteristics, aggressiveness and fighting strategies in pigs Animal Behaviour 69 (5). - p. 1085 - 1091. Bolhuis, J.E.; Schouten, W.G.P.; Schrama, J.W.; Wiegant, V.M. (2005) Behavioural development of pigs with different coping characteristics in barren and substrate-enriched housing conditions Applied Animal Behaviour Science 93 (3-4). - p. 213 - 228. Bolhuis, J.E.; Schouten, W.G.P.; Schrama, J.W.; Wiegant, V.M. (2006) Effects of rearing and housing environment on behaviour and performance of pigs with different coping characteristics Applied Animal Behaviour Science 101 (1-2). - p. 68 - 85. Borne, J.J.G.C. van den; Verdonk, J.M.A.J.; Schrama, J.W.; Gerrits, W.J.J. (2006) Reviewing the low efficiency of protein utilization in heavy preruminant calves - a reductionist approach Reproduction Nutrition Development 46 . - p. 121 - 137. Bos, A.R.; Kapasa, C.K.; Zwieten, P.A.M. van (2006) Update on the bathymetry of Lake Mweru (Zambia), with notes on water level fluctuations African Journal of Aquatic Science 31 (1). - p. 145 - 150. Bosma, R.H.; Udo, H.M.J.; Verreth, J.A.J.; Visser, L.E.; Nam, C.Q. (2006) Agriculture diversification in the Mekong Delta: Farmers' motives and contributions to livelihoods Asian journal of agriculture and development 2 (1&2). - p. 49 - 66. Bosma, R.H., U. Kaymak, J.v.d. Berg, and H.M.J. Udo, 2005. Fuzzy modelling of farmer motivations for integrated farming in the Vietnamese Mekong Delta. in 14th IEEE International Conference on Fuzzy Systems. Reno (Nevada, USA). 19. Bosma, R.H., et al., 2006. Assessing and modelling farmers’ decision-making on integrating aquaculture into agriculture in the Mekong Delta Farmer. Netherlands Journal of Agricultural Sciences, 53(3/4): p. 281-300. 120 WIAS Midterm Review 2007 Aquaculture and Fisheries Bruininx, E.M.A.M.; Schellingerhout, A.B.; Binnendijk, G.P.; Peet-Schwering, C.M.C. van der; Schrama, J.W.; Hartog, L.A. den; Everts, H.; Beynen, A.C. (2004) Individually assessed creep food consumption by suckled piglets: influence on post-weaning food intake characteristics and indicators of gut structure and hind-gut fermentation Animal Science 78 (1). - p. 67 - 75. Bucio Galindo, A.; Hartemink, R.; Schrama, J.W.; Rombouts, F.M. (2004) Screening of lactobacilli from fish intestines to select a probiotic for warm freshwater fish Bioscience and Microflora 23 (1). - p. 21 - 30. Bucio Galindo, A.; Hartemink, R.; Schrama, J.W.; Verreth, J.A.J.; Rombouts, F.M. (2005) Survival of Lactobacillus plantarum 44a after spraying and drying in feed and during exposure to gastrointestinal tract fluids in vitro Journal of General and Applied Microbiology 51 (4). - p. 221 - 227. Bucio Galindo, A.; Hartemink, R.; Schrama, J.W.; Verreth, J.A.J.; Rombouts, F.M. (2006) Presence of lactobacilli in the intestinal content of freshwater fish from a river and from a farm with a recirculation system Food Microbiology 23 (5). - p. 476 - 482. Dejen, E.; Vijverberg, J.; Nagelkerke, L.A.J.; Sibbing, F.A. (2004) Temporal and spatial distribution of microcrustacean zooplankton in relation to turbidity and other environmental factors in a large tropical lake (L. Tana, Ethiopia) Hydrobiologia 513 (1-3). - p. 39 - 49. Eding, E.H.; Kamstra, A.; Verreth, J.A.J.; Huisman, E.A.; Klapwijk, A. (2006) Design and operation of nitrifying trickling filters in recirculating aquaculture: a review Aquacultural Engineering 34 (3). - p. 234 - 260. El-Shafai, S.A.A.M.; El-Gohary, F.; Verreth, J.A.J.; Schrama, J.W.; Gijzen, H.J. (2004) Apparent digestibility coefficient of duckweed (Lemna minor), fresh and dry for Nile tilapia (Oreochromis niloticus L.) Aquaculture Research 35 (6). - p. 574 - 586. Geverink, N.A.; Heetkamp, M.J.W.; Schouten, W.G.P.; Wiegant, V.M.; Schrama, J.W. (2004) Backtest type and housing condition of pigs influence energy metabolism Journal of Animal Science 82 (4). - p. 1227 - 1233. Ginneken, V.J.T. van; Antonissen, E.; Müller, U.K.; Booms, G.H.R.; Eding, E.H.; Verreth, J.A.J.; Thillart, G. van den (2005) Eel migration to the Sargasso: remarkably high swimming efficiency and low energy costs Journal of Experimental Biology 208 (7). - p. 1329 - 1335. Ginneken, V.J.T. van; Vianen, G.; Muusze, B.; Palstra, A.P.; Verschoor, L.; Lugten, O.; Onderwater, M.; Schie, Sj.; Niemantsverdriet, P.; Heeswijk, R. van; Eding, E.H.; Thillart, G. van den (2005) Gonad development and spawning behaviour of artificially-matured European eel (Anguilla anguilla L.) Animal Biology 55 (3). - p. 203 - 218. Graaf, M. de; Machiels, M.A.M.; Wudneh, T.; Sibbing, F.A. (2004) Length at maturity and gillnet selectivity of Lake Tana's Barbus species (Ethiopia): Implications for management and conservation Aquatic Ecosystem Health and Management 6 (3). - p. 325 - 336. Graaf, M. de; Machiels, M.A.M.; Wudneh, T.; Sibbing, F.A. (2004) Declining stocks of Lake Tana's endemic Barbus species flock (Pisces, Cyprinidae): natural variation or human impact? Biological Conservation 116 (2). - p. 277 - 287. 121 WIAS Midterm Review 2007 Aquaculture and Fisheries Graaf, M. de; Zwieten, P.A.M. van; Machiels, M.A.M.; Lemma, E.; Wudneh, T.; Dejen, E.; Sibbing, F.A. (2006) Vulnerability to a small-scale commercial fishery of Lake Tana's (Ethiopia) endemic Labeobarbus compared with African catfish and Nile tilapia: An example of recruitment-overfishing? Fisheries Research 82 (1-3). - p. 304 - 318. Guo-Jun, Y.; Wiegertjes, G.F.; Yue-Ming, L.; Schrama, J.W.; Verreth, J.A.J.; Pao, X.; Hong-qi, Z. (2004) Effect of Astragalus radix on proliferation and nitric oxide production of head kidney macrophages in Cyprinus carpio: an in vitro study Journal of Fisheries of China 28 (6). - p. 628 - 632. Hari, B.; Kurup, B.M.; Varghese, J.T.; Schrama, J.W.; Verdegem, M.C.J. (2004) Effects of carbohydrate addition on production in extensive shrimp culture systems Aquaculture 241 (1-4). - p. 179 - 194. Hari, B.; Kurup, B.M.; Varghese, J.T.; Schrama, J.W.; Verdegem, M.C.J. (2006) The effect of carbohydrate addition on water quality and the nitrogen budget in extensive shrimp culture systems Aquaculture 252 (2-4). - p. 248 - 263. Hoffmann, F.; Larsen, O.; Rapp, H.T.; Osinga, R. (2005) Oxygen dynamics in choanosomal sponge explants Marine Biology Research 1 (2). - p. 160 - 163. Jiménez Montealegre, R.A.; Avnimelech, Y.; Verreth, J.A.J.; Verdegem, M.C.J. (2005) Nitrogen budget and fluxes in Colossoma macropomum ponds Aquaculture Research 36 (1). - p. 8 - 15. Jiménez-Montealegre, R.; Verdegem, M.C.J.; Dam, A.A.; Verreth, J.A.J. (2005) Effect of organic nitrogen and carbon mineralization on sediment organic matter accumulation in fish ponds Aquaculture Research 36 (10). - p. 983 - 995. Kabir, M.S.; Wahab, M.A.; Karim, M.; Verdegem, M.C.J.; Little, D.C. (2004) Comparison between existing low input and high input integrated pond-dike aquaculture systems in some villages of Muktagacha, Mymensingh Bangladesh Journal of Agricultural Sciences 2 (1). - p. 103 - 112. Keshavanath, P.; Gangadhar, B.; Ramesh, T.J.; Dam, A.A.; Beveridge, M.C.M.; Verdegem, M.C.J. (2004) Effects of bamboo substrate and supplemental feeding on growth and production of hybrid red tilapia fingerlings (Oreochromis mossambicusxOrechromis niloticus) Aquaculture 235 (1-4). - p. 303 - 314. Kies, A.K.; Gerrits, W.J.J.; Schrama, J.W.; Heetkamp, M.J.W.; Linden, K.L. van der; Zandstra, T.; Verstegen, M.W.A. (2005) Mineral absorption and excretion as affected by microbial phytase and their effect on energy metabolism in young piglets Journal of Nutrition 135 (5). - p. 1131 - 1138. Leenhouwers, J.I.; Adjei_Boateng, D.; Verreth, J.A.J.; Schrama, J.W. (2006) Digesta viscosity, nutrient digestibility and organ weights in African catfish (Clarias gariepinus) fed diets supplemented with different levels of a soluble non-starch polysaccharide Aquaculture Nutrition 12 (2). - p. 111 - 116. Martins, C.I.M.; Schrama, J.W.; Verreth, J.A.J. (2006) The relationship between individual differences in feed efficiency and stress response in African catfish Clarias gariepinus Aquaculture 256 (1-4). - p. 588 - 595. 122 WIAS Midterm Review 2007 Aquaculture and Fisheries Martins, C.I.M.; Trenovski, M.; Schrama, J.W.; Verreth, J.A.J. (2006) Comparison of feed intake behaviour and stress response in isolated and non-isolated African catfish Journal of Fish Biology 69 (2). - p. 629 - 636. Martins, C.I.M.; Schrama, J.W.; Verreth, J.A.J. (2006) The effect of group composition on the welfare of African catfish (Clarias gariepinus) Applied Animal Behaviour Science 97 (2-4). - p. 323 - 334. Matos Martins, C.I. de; Schrama, J.W.; Verreth, J.A.J. (2005) Inherent variation in growth efficiency of African catfish Clarias gariepinus (Burchell, 1822) juveniles Aquaculture Research 36 (9). - p. 868 - 875. Matos Martins, C.I. de; Aanyu, M.; Schrama, J.W.; Verreth, J.A.J. (2005) Size distribution in African catfish (Clarias gariepinus) affects feeding behaviour but not growth Aquaculture 250 (1-2). - p. 300 - 307. Matos Martins, C.I. de; Schrama, J.W.; Verreth, J.A.J. (2005) The consistency of individual differences in growth, feed efficiency and feeding behaviour in African catfish Clarias gariepinus (Burchell, 1822) housed individually Aquaculture Research 36 (15). - p. 1509 - 1516. Mous, P.J.; Densen, W.L.T. van; Machiels, M.A.M. (2004) Vertical distribution patterns of zooplanktivorous fish in a shallow, eutrophic lake, mediated by water transparency Ecology of Freshwater Fish 13 (1). - p. 61 - 69. Mueller, W.E.G.; Borejko, A.; Brandt, D.; Osinga, R.; Ushijima, H.; Hamer, B.; Krasko, A.; Xupeng, C.; Mueller, I.M.; Schroeder, H.-C. (2005) Selenium affects biosilica formation in the demosponge Suberites domuncula FEBS Journal 272 (15). - p. 3838 - 3852. Muendo, P.N.; Stoorvogel, J.J.; Gamal, N.E.; Verdegem, M.C.J. (2005) Short Communication. Rhizons improved estimation of nutrient losses because of seepage in aquaculture ponds Aquaculture Research 36 (13). - p. 1333 - 1336. Muendo, P.N.; Milstein, A.; Dam, A.; Gamal, N.E.; Stoorvogel, J.J.; Verdegem, M.C.J. (2006) Exploring the trophic structure in organically fertilized and feed-driven tilapia culture environments using multivariate analyses Aquaculture Research 37 (2). - p. 151 - 163. Ozorio, R.; Ginneken, V.J.T. van; Thillart, G. van den; Verstegen, M.W.A.; Verreth, J.A.J. (2005) Dietary Carnitine maintains energy reserves and delays fatigue of exercised African catfish (Clarias Gariepinus) fed high fat diets Scienta Agricola 62 (3). - p. 208 - 213. Rahman, M.M.; Verdegem, M.C.J.; Nagelkerke, L.A.J.; Wahab, M.A.; Milstein, A.; Verreth, J.A.J. (2006) Growth, production and food preference of rohu Labeo rohita (H.) in monoculture and in polyculture with common carp Cyprinus carpio (L.) under fed and non-fed ponds Aquaculture 257 (1-4). - p. 359 - 372. Ruane, N.M.; Lambert, J.G.D.; Goos, H.J.Th.; Komen, J. (2005) Hypocorticism and interrenal hyperplasia are not directly related to masculinization in XXmas(-1)/mas(-1) carp, Cyprinus carpio General and Comparative Endocrinology 143 (1). - p. 66 - 74. Rutten, M.J.M.; Bovenhuis, H.; Komen, J. (2004) Modelling of fillet traits based on body measurements in three Nile tilapia strains (Oreochromis niloticus L.) Aquaculture 231 (1-4). - p. 113 - 133. 123 WIAS Midterm Review 2007 Aquaculture and Fisheries Rutten, M.J.M.; Komen, J.; Deerenberg, R.M.; Siwek-Gapinska, M.Z.; Bovenhuis, H. (2004) Genetic characterisation of four strains of Nile tilapia (Oreochromie Niloticus L.) using microsatellite markers Animal Genetics 35 . - p. 93 - 97. Rutten, M.J.M.; Bovenhuis, H.; Komen, J. (2005) Genetic parameters for fillet traits and body measurements in Nile tilapia (Oreochromis niloticus L.) Aquaculture 246 (1-4). - p. 125 - 132. Rutten, M.J.M.; Komen, J.; Bovenhuis, H. (2005) Longitudinal genetic analysis of Nile tilapia (Oreochromis niloticus L.) body weight using a random regression model Aquaculture 246 (1-4). - p. 101 - 113. Schneider, O.; Amirkolaie, A.K.; Vera-Cartas, J.; Eding, E.H.; Schrama, J.W.; Verreth, J.A.J. (2004) Digestibility, faeces recovery, and related carbon, nitrogen and phosphorus balances of five feed ingredients evaluated as fishmeal alternatives in Nile tilapia, Oreochromis niloticus L. Aquaculture Research 35 (14). - p. 1370 - 1379. Schneider, O.; Sereti, V.; Eding, E.H.; Verreth, J.A.J. (2005) Analysis of nutrient flows in integrated intensive aquaculture systems Aquacultural Engineering 32 (3-4). - p. 379 - 401. Schneider, O.; Sereti, V.; Eding, E.H.; Verreth, J.A.J. (2006) Molasses as C source for heterotrophic bacteria production on solid fish waste Aquaculture 261 (4). - p. 1239 - 1248. Schneider, O.; Cong, T.L; Sereti, V.; Schrama, J.W.; Eding, E.H.; Verreth, J.A.J. (2006) Bacteria of commercial diet : the preferences of Litopenaeus vannamei Aquaculture Research 37 (2). - p. 204 - 207. Schneider, O.; Sereti, V.; Machiels, M.A.M.; Eding, E.H.; Verreth, J.A.J. (2006) The potential of producing heterotrophic bacteria biomass on aquaculture waste Water Research 40 (14). - p. 2684 - 2694. Schram, E.; Heul, J.W. van der; Kamstra, A.; Verdegem, M.C.J. (2006) Stocking density-dependent growth of Dover sole (Solea solea) Aquaculture 252 . - p. 339 - 347. Torres Beristain, B.; Verdegem, M.C.J.; Kerepeczki, E.; Verreth, J.A.J. (2006) Decomposition of high protein aquaculture feed under variable oxic conditions Water Research 40 (7). - p. 1341 - 1450. Uddin, S.; Azim, M.E.; Wahab, M.A.; Verdegem, M.C.J. (2006) The potential of mixed culture of genetically improved farmed tilapia (GIFT, Oreochromis niloticus) and freshwater giant prawn (Macrobrachium rosenbergii) in periphyton-based systems Aquaculture Research 37 (3). - p. 241 - 247. Verdegem, M.C.J.; Bosma, R.H.; Verreth, J.A.J. (2006) Reducing water use for animal production through aquaculture International Journal of Water Resources Development 22 (1). - p. 101 - 113. Scientific articles in other journals Verdegem, M.C.J. (2005) Book review: Biology and Culture of Channel Catfish Aquaculture Research 26 (10). - p. 1034 - 1036. 124 WIAS Midterm Review 2007 Aquaculture and Fisheries Non-refereed book chapters Azim, M.E.; Beveridge, M.C.M.; Dam, A.A.; Verdegem, M.C.J. (2005) Periphyton and aquatic production: an introduction In: Periphyton: ecology, exploitation and management / Azim, M.E., Verdegem, M.C.J., Dam, A.A. van, Beveridge, M.C.M., . - Wallingford, UK : CAB International, - p. 1 - 13. Dam, A.A.; Verdegem, M.C.J. (2005) Utilization of periphyton for fish production in ponds: a systems ecology perspective In: Periphyton: ecology, exploitation and management / Azim, M.E., Verdegem, M.C.J., Dam, A.A. van, Beveridge, M.C.M., . - Wallingford, UK : CAB International, - p. 91 - 111. Martins, C.I.M.; Schrama, J.W.; Verreth, J.A.J. (2005) The effect of group composition on the welfare of African catfish (Clarias gariepinus) In: Aquaculture Europe 2005 , "Lessons from the past to optimise the future", 5-9 August, 2005, Trondheim, Norway / Howell, B., Flos, R., . - In: Aquaculture Europe 2005 , "Lessons from the past to optimise the future", 5-9 August, 2005, Trondheim, Norway. - Oostende : European Aquaculture Society, (EAS Special Publication 35) - p. 320 - 322. Verdegem, M.C.J.; Eding, E.H.; Sereti, V.; Munubi, R.N.; Santacruz-Reyes, R.A.; Dam, A.A. (2005) Similarities between microbial and periphytic biofilms in aquaculture systems In: Periphyton: ecology, exploitation and management / Azim, M.E., Verdegem, M.C.J., Dam, A.A. van, Beveridge, M.C.M., . - Wallingford, UK : CAB International, - p. 191 - 205. Verdegem, M.C.J.; Dam, A.A.; Azim, M.E.; Beveridge, M.C.M. (2005) Periphyton ecology, exploitation and management: knowledge gaps and directions for future research In: Periphyton: ecology, exploitation and management / Azim, M.E., Verdegem, M.C.J., Dam, A.A. van, Beveridge, M.C.M., . - Wallingford, UK : CAB International, - p. 299 - 309. Zwieten, P.A.M. van; Sidik, S.A.; Noryadi, I.; Suyatna, I. (2006) Aquatic Food Production in the Coastal Zone: Data-based Perceptions on the Trade-off between Mariculture and Fisheries Production of the Mahakam Delta and Estuary, East Kalimantan, Indonesia In: Environment and Livelihoods in Tropical Coastal Zones: Managing agriculture-fishery-aquaculture conflicts / Tuong, T.P., Gowing, J.W., Hardy, B., Hoanh, C.T., . - Wallingford, UK : CABI Publishing, in association with IRRI, (Comprehensive Assessment of Water Management in Agriculture 2) - p. 219 - 236. Monographs Azim, M.E.; Verdegem, M.C.J.; Dam, A.A.; Beveridge, M.C.M. (2005) Periphyton: ecology, exploitation and management Wallingford, UK : CAB International, - p. 319. Dejen, E.; Graaf, M. de; Nagelkerke, L.A.J.; Sibbing, F.A.; Wudneh, T.; Osse, J.W.M. (2006) Lake Tana Fishery and Sustainable Development Bahir Dar, Ethiopia : Amhara Region Agricultural Research Institute & University, - p. 84. Kolding, J.; Zwieten, P.A.M. van (2006) Improving productivity in tropical lakes and reservoirs Cairo, Egypte : WorldFish Center, (Challenge Program on Water and Food-Aquatic Ecosystems and Fisheries Review Series 1. Theme 3 of CPWF. ) - p. 139. Proceedings (Full papers only) Amirkolaie, A.K.; Schrama, J.W.; Verreth, J.A.J. (2004) Comparison of digestibility and faeces recovery using two methods of faeces collection In: Conference on 'Biotechnologies for quality', Barcelona, Spanje, 2004. - 125 WIAS Midterm Review 2007 Aquaculture and Fisheries Bosma, R.H.; Nam, C.Q.; Duc, P.M.; Udo, H.M.J.; Verreth, J.A.J. (2004) Motivation of farmers in the Vietnamese Mekong Delta to integrate aquaculture in their production system In: Wong et al,2004. New dimensions and challenges for sustainable livestock farming. Proc.11th AAAP congres Kuala Lumpur, 5-9 Sept.2004 Vol III pp419-422. Bosma, R.H.; Cao Quoc Nam, H.; Udo, H.M.J.; Verreth, J.A.J. (2005) Don't accumulate but integrate farm components for higher profits In: Integrating Livestock-Crop Systems to Meet the Challenges of Globalisation. Proc.AHAT/BSAS Int.Conf.,Nov.14-18, 2005, Khon Kaen, Thailand. - British Society of Animal Science, - p. T58. Bosma, R.H.; Berg, J. van den; Kaymak, U.; Udo, H.M.J.; Verreth, J.A.J. (2006) Using fuzzy logic to simulate the composition of farming systems in the Mekong Delta In: Animal production and sustainable agriculture in the tropic. Part 2. Supporting papers. Proc. 4th ISTAP, 8-9 november 2006. - , Indonesia : - p. 484 - 494. Bush, S.R.; Zwieten, P.A.M. van (2006) Scaled interactions of flows and places in shrimp culture and fisheries in Vietnam and Indonesia: the approach of the RESCOPAR program In: Proceedings Conference International Forum on Water and Food, Vientiane, Laos, 12-17 November 2006. Vientiane, Laos : Mekong River Commissions, - p. 21. Fessehaye, Y.; Rezk, M.A.; Bovenhuis, H.; Komen, J. (2005) Size dependent cannibalism in juvenile Nile Tilapia (Oreochromis niloticus) In: Proceedings of the 6th international symposium on tilapia in aquaculture, Manila, Philippines, 12-16 September 2004. Kelly, M.; Eding, E.H. (2005) Developments in environmentally friendly systems In: Lessons from the past to optimise the future, Lessons from the past to optimise the future, Trondheim, 5-9 August 2005. Leenhouwers, J.I.; Santos, G.A.; Schrama, J.W.; Verreth, J.A.J. (2004) Digesta viscosity and nutrient digestibility in European sea bass in a fresh water and marine environment In: Conference on 'Biotechnologies for quality', Barcelona, Spain, 20-23 October 2004. Nagelkerke, L.A.J.; Tsehaye, I.W. (2006) Sampling fisheries with high levels of accepted relative error may lead to over-estimation of the statistical power of trend detection In: ICES Annual Science Conference, Maastricht, The Netherlands,19-23 September 200619-23 September:. Maastricht : Nieuwegiessen, P.G. van de; Schrama, J.W.; Verreth, J.A.J. (2005) Individual variation in behaviour and HPI-axis activity, coping styles, in African catfish (Clarias gariepinus) In: Aquaculture Europe 2005 , "Lessons from the past to optimise the future", 5-9 August, 2005, Trondheim, Norway. Nieuwegiessen, P.G. van de; Schrama, J.W.; Verreth, J.A.J. (2005) The effects of stocking density on welfare indicators on African catfish (Clarias gariepinus) In: Aquaculture Europe 2005 , "Lessons from the past to optimise the future", 5-9 August, 2005, Trondheim, Norway. Nieuwegiessen, P.G. van de; Verreth, J.A.J.; Schrama, J.W. (2006) The effects of stocking density on welfare indicators in African catfish Clarias gariepinus (Burchell) In: Aqua 2006. - Firenze, Italy : - p. 968. Osinga, R. (2005) Towards coral reefs in tanks: the CORALZOO project In: Proceedings of annual EUAC symposium, Lisbon, 27 Sep-1 Oct 2005. - 126 WIAS Midterm Review 2007 Aquaculture and Fisheries Phong, L.T.; Udo, H.M.J.; Mensvoort, M.E.F. van; Le Quang Tri, --; Bosma, R.H.; Nhan, D.K. (2004) Understanding integrated agriculture-aquaculture systems in the Mekong Delta, Vietnam In: Proceedings 11th AAAP Congress 2004 Vol. III, Kuala Lumpur, Malaysia, 5-9 September 2004. - Kuala Lumpur, Malaysia : Schneider, O.; Amirkolaie, A.K.; Vera-Cartas, J.; Eding, E.H.; Schrama, J.W.; Verreth, J.A.J. (2004) C, N, P balances of five feed ingredients evaluated as fishmeal alternatives in tilapia diets In: Conference on 'Biotechnologies for quality', Barcelona, Spanje. Schneider, O.; Cong, L.T.; Sereti, V.; Eding, E.H.; Schrama, J.W.; Verreth, J.A.J. (2004) Comparison of feed preference of Litopenaeus vannamei fed SCP or commercial diets In: Conference on 'Biotechnologies for quality', Barcelona, Spanje, EAS Conference, 20-23 October 2004. Schneider, O.; Sereti, V.; Eding, E.H.; Verreth, J.A.J. (2004) Yields and nutrient balances of bacterial production on carbon supplemented fish waste In: Conference on 'Biotechnologies for quality', Barcelona, Spanje, 20-23 October 2004. - Barcelona, Spanje : p. 729 - 730. Schrama, J.W.; Leenhouwers, J.I.; Verreth, J.A.J. (2005) Plant ingredients in fish diets: effects of non-starch polysaccharides In: Seeding a Future for Grains in Aquaculture Feeds - Part III. (B.D. Glencross Ed.). Proceedings of a Workshop, 14th April 2005, Fremantle, Western Australia. Sereti, V.; Verdegem, M.C.J.; Eding, E.H.; Verreth, J.A.J. (2004) Periphyton as water treatment in fresh water recirculation system In: Conference on 'Biotechnologies for quality', Barcelona, Spanje, 20- 23 October 2004. Tran Duy An; Dam, A.A.; Verreth, J.A.J.; Schrama, J.W. (2005) Modelling fish growth using the concentration of metabolites to regulate feed intake and metabolism In: Proceedings of MODSIM 2005 Int.Congress on Modelling and Simulation. Modelling and Simulation Society of Australia and New Zealand, December 2005. Tsehaye, I.W.; Nagelkerke, L.A.J. (2006) The effect of individual species variability on the use of the total catch as an indicator of trends in a multispecies fisheries in the Red Sea In: ICES Annual Science Conference, 19-23 September: CM 2006/M:14. - Maastricht : Verdegem, M.C.J. (2005) Organic aquaculture: criteria and future directions In: Sustain Fish 2005; 16-18 March 2005,Cochin,India. Scientific reports Anholt, R.D. van (2005) Antibiotics in shrimp farming and possible alternatives Wageningen : WUR, Duc, B.T.M.; Thinh, N.V.; Huy, N.T.; Thi, D.V.; Bat, N.K.; Zwieten, P.A.M. van; Aasen, B. (2005) Case study chapter: Nam Dinh Province. Perceiving changes in fish stocks and species composition in the Red River Delta estuary, Vietnam: scale of fishing and the potential to develop quantitative indicators based on local observations in a variable and rapidly changing environment with high species diversity Vietnam : EU/INCO-DEV, (Knowledge in Fisheries Management Project ) - p. 113. 1 - 137 Kamermans, P.; Jol, J.G.; Gool, A.C.M. van; Breen, V.P.; Brummelhuis, E.B.M.; Verdegem, M.C.J. (2005) Monitoring invang mosselzaad met collectoren in de Waddenzee (Doove Balg) IJmuiden : RIVO, (Rapport C029/05) - p. 17. 127 WIAS Midterm Review 2007 Aquaculture and Fisheries Kolding, J.; Zwieten, P.A.M. van (2005) Improving productivity in lakes and reservoirs Wageningen, Bergen/Noorwegen : CGIAR Challenge Program on Water and Food, (Theme 3:Aquatic Ecosystems and Fisheries ) - p. 64. Kolding, J.; Zwieten, P.A.M. van; Manyala, J.; Okedi, J.; Mgaya, Y.D.; Orach-Meza, F. (2005) Regional Synthesis Report on fisheries research and management. States, trends and processes Maun,Wageningen,Dar Es Salaam : Lake Victoria Environmental Management Program (LVEMP), - p. 216. Nieuwegiessen, P.G. van de; Schrama, J.W.; Verreth, J.A.J. (2005) Welfare aspects of African catfish (Clarias gariepinus) in aquaculture Wageningen : Aquacultuur en Visserij, - p. 34. Nieuwegiessen, P.G. van de; Schrama, J.W.; Verreth, J.A.J. (2005) The effects of stocking density on performance, physiological and behavioural responses of African catfish (Clarias gariepinus) - 100-300 gram Wageningen : Wageningen Universiteit, Lsg Aquacultuur en Visserij, - p. 23. Nieuwegiessen, P.G. van de; Schrama, J.W.; Verreth, J.A.J. (2006) The effects of stocking density on performance, physiological and behavioural responses of African catfish (Clarias gariepinus) - 1000-1500 gram Wageningen : Aquacultuur en Visserij, - p. 21. Rijnen, M.M.J.A.; Schrama, J.W.; Borne, J.J.G.C. van den; Gerrits, W.J.J.; Cone, J.W.; Gelder, A.H. van (2004) Effecten van fermenteerbare grondstoffen op de fysieke activiteit in relatie tot energiebenutting bij varkens. Fase 2: Invloed van fermentatiesnelheid van fermenteerbare koolhydraten Wageningen : Wageningen Universiteit, - p. 43. Verdegem, M.C.J.; Taal, C. (2005) Mission Report Egypt RIVO Seafood & Aquaculture, - p. 86. Verdegem, M.C.J. (2005) RNE - Cairo fisheries sector support plan IJmuiden : RIVO, (RIVO Report C060/05) - p. 11. Verdegem, M.C.J.; Taal, K. (2005) Action plan to alleviate constraints hampering the further development of the fisheries sector in Egypt IJmuiden : RIVO, (RIVO Report C058/05) - p. 25. Verdegem, M.C.J.; Taal, K. (2005) Action plan to alleviate constraints hampering the further development of the fisheries sector in Egypt (executive version) IJmuiden : RIVO, (RIVO Report C059/05) - p. 18. Zwieten, P.A.M. van; Banda, M.; Mwakiyingo, K.; Manase, M.; Kanyerere, G.; Nyasulu, T. (2005) Case study: South East Arm of Malawi. Potential biological state and pressure indicators of Lake Malawi SE Arm and Lake Malombe: evaluative capacity of the Fisheries Research Unit of Malawi Malawi : EU/INCO-DEV, (Knowledge in Fiseries Management Project ) - p. 93. Professional publications and products (incl. patents) Anholt, R.D. van (2005) 'Lard oil' als alternatief voor visolie in commerciële voeders voor vissen en garnalen: een literatuurstudie Musselkanaal : Ten Kate Holding BV, - p. 27. 128 WIAS Midterm Review 2007 Aquaculture and Fisheries Bijl, H. van der; Schneider, O.; Leenstra, S.H. (2005) Geautomatiseerde procesveiligheid in De Haar Vissen Agro Informatica 18 (4). - p. 11 - 13. Brandenburg, W.A.; Kamermans, P.; Steenbergen, J.; Verdegem, M.C.J.; Baars, J.M.D.D. (2004) Mogelijkheden voor zeecultuur in nieuwe getijdennatuur langs de Westerschelde Visserijnieuws . - p. 31.IJmuiden : RIVO, (Rapport C027/04) - p. 31. Jul-Larsen, E; Kolding, J.; van Zwieten, P. (2004). African freshwaters: are small-scale fisheries a problem? The State of World Fisheries and Aquaculture, SOFIA, FAO, Rome. pp13 Kamermans, P.; Verdegem, M.C.J. (2004) Inventarisatie stand van zaken mosselkweek op open zee Marine Ecology Progress Series . - p. 19.IJmuiden/Yerseke : RIVO, (Rapport C039/04) - p. 19. Komen, H.; Kamermans, P. (2004) Broed voor vis en schelpdieren. In: Zee in zicht; zilte waarden duurzaam benut. Ester Luiten, editor. STT/BEWETON publikatie 67. P. 296299. Komen, H.; Wijffels, R.; Kamermans, P.; Luiten, E. (2004) Ontwerp Visplus. In: Zee in zicht; zilte waarden duurzaam benut. Ester Luiten editor. STT/BEWETON publikatie 67. P. 309-317. Leenhouwers, J.I.; Schrama, J.W.; Verreth, J.A.J. (2004) Kunnen vissen vegetariër worden Utrecht : Technologiestichting STW, - p. 56 - 59. Meyer, T.; Mous, P.J.; Pet, J.S. (2004) Sustainable, profitable and socially responsible-building a 'triple bottom line' grouper and snapper culture industry in Komodo Aquaculture Asia IX (4). - p. 34 - 36. Nagelkerke, L.A.J. (2006) Wageningen UR, wetenschappelijk centrum voor vis Visionair : het vakblad voor sportvisserij Nederland 1 (1). - p. 36 - 39. Osinga, R.; Janse, M.; Jones, R. (2005) Towards coral reefs in tanks EAZA News . - p. 10 - 12. Postma, D.J.; Komen, J.; Hurkens, R.R.C.M. (2004) Can the Dutch extract the Gold from the Goldfish? (Potential development of ornamental fish production in The Netherlands) OFI Journal 45 . - p. 20 - 23. Schneider, O.; Wijsman, J.W.M.; Steenbergen, J.; Smaal, A.C. (2006) Vissen in het zout...: een quickscan naar de gevolgen van het alternatief "zout" voor de visserij en schelpdiercultuur in het Volkerak Zoommeer IJmuiden : IMARES, (Rapport IMARES C069/06) - p. 25. Steenbergen, J.; Verdegem, M.C.J.; Jol, J.; Perdon, K.J.; Kamermans, P. (2005) Verkenning van mogelijkheden voor mosselteelt op open zee & een mosselkansenkaart voor de Noordzee RIVO Seafood & Aquaculture, (RIVO Rapport C088/05) Verdegem, M.C.J.; Schrama, J.W. (2005) Added carbohydrates aid production in extensive shrimp culture Global Aquaculture Advocate 8 (1). - p. 88 - 89. 129 WIAS Midterm Review 2007 Aquaculture and Fisheries Verdegem, M.C.J.; Torres Beristain, B. (2005) Afbraak van organisch materiaal en bacteriële biomassa in aquacultuur productiesystemen Aquacultuur 2 . - p. 15 - 19. Verdegem, M.C.J. (2005) Aquacultuurproductie: trends en uitdagingen Aquacultuur 6 . - p. 48 - 54. Verdegem, M.C.J.; Bosma, R. (2006) Vijverteeltonderzoek in Wageningen (deel 1) Aquacultuur 21 (1). - p. 25 - 31. Wahab, M.A.; Little, D.C.; Azim, M.E.; Verdegem, M.C.J. (2005) The role of ponds in livelihoods Mymensingh, Bangladesh : Bangladesh Agricultural University, (State of System(SOS) Report ) - p. 16. Publications for the general public Komen, H. (2004) Hom en kuit in de aqaucultuur. In: ‘Over …bevissing van de zee’. Biowetenschappen en maatschappij 3/2004. P. 51-62. P.R. Wiepkema, J.A.J. Verreth, W. .van Haren eds. Uitgave stichting biowetenschappen en maatschappij. ISBN 90-73196-388. P.R. Wiepkema, J.A.J. Verreth en W. van Haren (Editors) (2004) Over...bevissing van de zee. Cahiers Bio-Wetenschappen en Maatschappij, 23e jaargang, nr 3, dec (totaal: 72p) Verreth, J.A.J. 2004. Voedsel uiit de zee of een zee van voedsel, In: P.R. Wiepkema, J.A.J. Verreth en W. van Haren, Over..Bevissing van de Zee, Cahiers Bio-Wetenschappen en Maatschappij, 23 (3), 2-15. 130 WIAS Midterm Review 2007 Cell Biology and Immunology Cell Biology and Immunology (CBI) 1 Reflection on the previous assessment Significant changes compared to the 2004 review The basic views on mission, internal leadership, and research strategy and policy of the CBI group have not changed as compared to the previous peer review period. However, as compared to the previous peer review one staff member, Dr. Rene Stet (associate professor) has left as per April 1, 2005. Due to the financial deficit of CBI, this position was not filled until the February 1, 2007. As reported we have further expanded the new research line on “Immunomodulation by nutrition”. We continue to make the research profile of CBI coherent and focussed to fit into WUR and into WIAS by the use of animal and human material to answer our fundamental and strategic immunological research questions. This notion has been acknowledged by the 2004 review panel. With the thesis of Dr. H. Huttenhuis we have stopped the research line on ontogeny of the carp immune system. Moreover, with the leaving of Dr. R. Stet we have also stopped the research line on molecular ecology of the immune system. This is in line with our ambition to diversify our focus away from fish. Increasing productivity In the 2004 review it was stated that the published output was satisfactory, but not high. We have gradually increased the publication output to 22 papers per year, and also have increased the average impact factor of our publications to 3.7 with 4 papers having an impact factor above 6.0. The filling of the position with Dr. Edwin Tijhaar with expertise in veterinary immunology in 2007 is of strategic importance for CBI. Also our efforts to increase contributions of postdoctoral fellows in the guidance of PhD projects have expanded our potential and scientific standards. By establishing a state-of-the-art human culture facility in 2006, CBI has the proper infrastructure to deal with in vitro analysis of human material, including peripheral blood. Moreover, CBI has obtained a real time quantitative PCR technology in 2004 which has greatly facilitated our research output. Increased collaborations within WIAS CBI has increased its recognition within WIAS and has started joint PhD collaborations with ADP, AFI and ABG. Besides teaching to students in Biology, Biotechnology and Molecular Sciences, CBI has also now some teaching obligations in Animal Sciences. This will further expand opportunities for future collaborations. Increased collaborations within WUR CBI is per December 2003 coordinating the WUR programme of the “Allergy Consortium Wageningen” in which all 5 science groups participate and in which 5 PhD projects are currently running in WUR (1 within WIAS). Funding potential As pointed out in the recommendations of the previous review the CBI group has a strong position in fundamental and strategic approach rather than in the applied approach. This is consistent with the main funding bodies of which funding continues to be obtained, e.g. EU, ALW-NWO. Due to the research lines chosen and the nature of the working area it continues to be difficult to attract attention and funding from companies. The management strongly 131 WIAS Midterm Review 2007 Cell Biology and Immunology argues for adequate change of approach of our group but this is not compatible with the scientific level of research that we aim at, the international networks we are operating in, and the qualifications and ambition of the staff and the chair group. The financial possibilities provided by WUR and outside (e.g. within the EU or NWO funding) to keep the technologies, and equipment on state-of-the-art level are very restricted for a chair group like CBI. Future ambition CBI is prepared to strengthen its research position by building on the activities outlined above and staying in accordance with its ambition. CBI has the ambition to obtain Veni funding by supporting our most promising PhD students and by an individual training support for those starting PhD students that express this ambition. 2 Research input Table 2.1 Research staff Name and present title Period of appointment Start End Sep 2000 Jan 1986 Mar Jan 1986 Mar Aug 1987 Sep 1998 Oct 2002 Oct Jul 2004 Oct Apr 2005 Apr Feb 2006 Jul Jul 2006 Jul Jul 2006 Jul Fte* Coll. Full professors H.F.J. Savelkoul 1.0 Associate professors J.H.W.M. Rombout 2005 1.0 R.J.M. Stet 2005 1.0 Assistant professors B.M.L. van Kemenade 0.7 G.F. Wiegertjes 0.8 Non-tenured staff H. Zhao 2005 1.0 H.J. Verhoef 2007 1.0 A. Ruszczyk 2007 1.0 A. Fatima de Mazon 2006 1.0 J. Arts 2010 1.0 M. Chadzinska 2008 1.0 PhD students Employed M. Huising Apr 2000 Feb 2006 1.0 B.T. Huttenhuis Jan 2001 Oct 2005 1.0 J.A.J. Arts Mar 2001 Nov 2006 1.0 M. Joerink Jan 2002 Sep 2006 1.0 M. Forlenza Sep 2002 1.0 E.E. Stolte Jun 2003 1.0 P.V. Jeurink Dec 2003 1.0 J. Veenemans Oct 2004 1.0 Y. Vissers Sep 2006 1.0 FCH T. Ploegaert Sep 2006 1.0 ABG Guest P. Urán May 2003 1.0 AFI C. Ribeiro May 2003 1.0 Sandwich P. Jurecka Sep 2001 1.0 E. Mbugi Jan 2005 1.0 M. Waka Jan 2005 1.0 K. Rakus Feb 2002 1.0 G. Yang Jan 2006 1.0 * fte regards the total appointment; tenured staff has approximately 40% available for research 132 WIAS Midterm Review 2007 Cell Biology and Immunology Table 2.2 Research input in fte by staff, postdocs and PhD students Average 2004 2005 2006 1999-2003 Tenured staff 1.8 1.5 1.4 1.7 Postdocs and other non-tenured staff 3.3 2.9 3.0 1.6 AIO/OIOs 4.5 3.3 2.1 3.0 Other PhD students * 0.5 1.2 2.4 0.2 Total 10.0 8.8 8.8 6.5 * research time of external and sandwich PhD students is counted only when spent in Wageningen The input in 2004 was extraordinary large due to the large number of PhD students appointed in 2001 and 2002. The input in 2006 is more realistic for the CBI group in which the guidance of PhD students is at a premium. Table 2.3 Research funding in fte by staff, postdocs and PhD students 2004 4.3 1.2 4.6 10.0 2005 3.4 2.7 2.7 8.8 2006 3.5 2.0 3.4 8.8 Average 1999-2003 2.8 1.3 2.4 6.5 University funded NWO funded Contract funded Total As of 2006 the preparations for the 7th framework of the EU offered more successful opportunities for funding. 133 WIAS Midterm Review 2007 Cell Biology and Immunology 3 Overview of the results The average number of peer reviewed scientific papers continues to increase over the last few years. Also the average impact factors of the papers is increasing since CBI manages to publish also in main stream high ranking immunological journals. Also the earning power of the staff members with EU is better in the preparation of the 7th EU-framework than it was in the 6th framework. There is a gradual increase in industrial attention for the CBI group but this has not yet precipitated in well funded collaborative projects. Table 3.1 Publication output 2004 PhD theses Academic publications in refereed journals in other journals refereed book chapters non-refereed book chapters monographs edited books and special issues proceedings (full papers only) scientific reports Total academic publications Professional publications and products (incl. IP) Publications for the general public Table 3.2 Number of publications per fte research input Per fte tenured staff Refereed journals Academic publications Per fte total research input Refereed journals Academic publications 1.5 1.9 2.0 2.4 2.5 2.9 1.9 2.1 2004 8.6 10.9 2005 12.0 14.0 2006 16.3 18.5 Average 1999-2003 7.3 7.9 0 15 0 1 0 1 0 2 0 19 2 6 2005 1 18 0 2 1 0 0 0 0 21 2 2 2006 3 22 0 0 1 1 0 0 1 25 5 0 Average 1999-2003 1.2 12.4 0 0.2 0 0 0 0.8 0 13.4 1.0 1.4 With a staff of 4 scientists this production means more than 5 papers per staff member per year. Our staff members have a h-index ranging from 12 to 27, with 407 to 3201 citations each. 134 WIAS Midterm Review 2007 Cell Biology and Immunology 4 Analysis, perspectives and expectations of the Chair group Strengths • CBI has an internationally strong position in molecular and cellular aspects in comparative and phylogenetic aspects in cell biology and immunology. In particular, fish immunology and rational design of fish vaccination are well recognised. The newly developed research line on natural disease resistance and innate immunity in chicken provides ample opportunities to incorporate research lines within several groups in WIAS, in ASG, and for collaboration with the Veterinary Faculty in Utrecht. The research line in chicken has been rapidly developed within ASG and WIAS over the last two years. The new research line on immunopathology underlying the development of allergic diseases (i.e. food allergy) and immunomodulation by food and feed components in human beings provides collaborations with other groups in WUR, but also provides new opportunities for collaborative research on allergic diseases in veterinary species with WIAS, ASG and Veterinary Faculty in Utrecht. There is a steady increase in output of papers, increase in average impact factor of our papers, and increase in scientific performance of staff members. The primary research network in the aquatic and comparative immunology of CBI lies outside ASG and WUR. In the broad organisation of ASG, WUR and outside (Utrecht) CBI has not yet fully been recognised as a nucleus providing top teaching and research programs in Cell Biology and Immunology, providing expert advice and facilitating strategic and innovative developments in the filed. The CBI group has only limited financial reserves and is too small to accumulate the necessary technological equipment for state-of- theart research in all covered fields. ASG and WUR have a high administrative load and high costs for overhead. CBI has thus to limit itself for intellectual, technological and financial reasons to strategic research questions and strategic collaborations. The external collaborations and the position in several fields of expertise have made CBI attractive to extend existing research lines. CBI has been actively contacted to collaborate into new EU projects, LNV projects and beyond (WOTRO-NWO and UNICEF). Importantly, these new research lines will provide more opportunities to more actively participate in research profiles of WIAS and the ASG, will increase opportunities to collaborate with Utrecht and will put CBI at the top edge of the traditional research profiles of WIAS and ASG. • • • • • Weaknesses • • • • • • Opportunities 135 WIAS Midterm Review 2007 Cell Biology and Immunology Threats • • • • • • • • Analysis Adjusted goals Adjusted strategy • The internationally recognised position of CBI in the various fields of expertise is dependent on one senior staff member per research line. Opportunities to provide staff members with further career perspective within the organisation are becoming more limited. The field of Immunology is increasingly been recognized as attractive to other parts of WUR and who, due to better financial possibilities, organize their own staff in immunology. Strategic research profiles of WIAS, ASG and WUR are not yet completely congruent and aligned. A large part of the CBI research profile fits better in WIAS and WUR than it fits within ASG. CBI has to continue strengthening its research profile in WIAS, and in particular ASG. CBI has to further strengthen its collaborations with the Veterinary Faculty in Utrecht. Since the research profile of CBI is internationally oriented, networks continue to be of importance to attract future students. CBI has to increasingly apply for grants together with industry. The current research profile of CBI has been developed and agreed by the group during several recent research retreats. The further development of this profile will be continued over the next years. Since possibilities for future funding is strongly dependent on the internationally recognised position in the field, adaptations to the research profile can only be performed gradually. The introduction of new research lines has proven to be successful and these will be continued over the next few years. 136 WIAS Midterm Review 2007 Cell Biology and Immunology Annex Publications 2004-2006 PhD theses Arts, J.A.J. (2006) Immune defence White Spot Syndrome Virus infected shrimp, Penaeus monodon WUR Wageningen UR. Promotor(en): Savelkoul, Prof dr ir H.F.J.; Stet, Dr R.J.M.. - [S.l.] : [s.n.], - p. 134. Huising, M.O. (2006) Communication in the endocrine and immune systems, physiology and phylogeny Radboud Universiteit Nijmegen. Promotor(en): Flik, Prof G.; Savelkoul, Prof dr ir H.F.J., co-promotor(en): Kemenade, Dr B.M.L. van. - [S.l.] : [s.n.], - p. 296. Huttenhuis, B.T. (2005) Ontogeny of the common carp (Cyprinus carpio L.) immune system WUR Wageningen UR. Promotor(en): Muiswinkel, Prof dr W.B. van; Savelkoul, Prof dr ir H.F.J., copromotor(en): Rombout, Dr J.H.W.M.. - Wageningen : - p. 173. Joerink, M. (2006) Macrophage polarisation: immune responses of carp against parasites Wageningen Universiteit. Promotor(en): Savelkoul, Prof dr ir H.F.J.; Wiegertjes, Dr ir G.F.. - [S.l. ] : [s.n.], - p. 176. Scientific articles in refereed journals Bosma, R.H.; Savelkoul, H.F.J.; Frankena, K.; Baars, T.; Laarakker, E. (2006) Dairy herd health, impedance on six acupuncture points and immune response factors in milk: A pilot study Livestock Science 99 (2-3). - p. 285 - 290. Bowden, T.J.; Cook, P.; Rombout, J.H.W.M. (2005) Development and function of the thymus in teleosts Fish and Shellfish Immunology 19 (5 sp. is). - p. 413 - 427. Companjen, A.R.; Florack, D.E.A.; Bastiaans, J.H.M.W.; Matos Martins, C.I. de; Bosch, D.; Rombout, J.H.W.M. (2005) Development of a cost-effective oral vaccination method against viral disease in fish Developments in Biologicals 121 . - p. 143 - 150. Companjen, A.R.; Heinhuis, B.; Aspers, K.; Rombout, J.H.W.M. (2006) In vivo evoked specific cell mediated cytotoxicity in carp (Cyprinus carpio L.) uses mainly a perforin/granzymelike pathway Fish and Shellfish Immunology 20 (1). - p. 113 - 117. Companjen, A.R.; Florack, D.E.A.; Slootweg, T.; Borst, J.W.; Rombout, J.H.W.M. (2006) Improved uptake of plant-derived LTB-linked proteins in carp gut and induction of specific humoral immune responses upon infeed delivery Fish and Shellfish Immunology 21 (3). - p. 251 - 260. Consuegra, S.; Megens, H.J.W.C.; Schaschl, H.; Leon, K.M.; Stet, R.J.M.; Jordan, W.C. (2005) Rapid evolution of the MH class I locus results in different allelic compositions in recently diverged populations of Atlantic salmon Molecular Biology and Evolution 22 (4). - p. 1095 - 1106. Consuegra, S.; Megens, H.J.W.C.; Leon, K.M.; Stet, R.J.M.; Jordan, W.C. (2005) Patterns of variability at the major histocompatibility class II alpha locus in Atlantic salmon contrast with those at the class I locus Immunogenetics 57 (1-2). - p. 16 - 24. 137 WIAS Midterm Review 2007 Cell Biology and Immunology Guo-Jun, Y.; Wiegertjes, G.F.; Yue-Ming, L.; Schrama, J.W.; Verreth, J.A.J.; Pao, X.; Hong-qi, Z. (2004) Effect of Astragalus radix on proliferation and nitric oxide production of head kidney macrophages in Cyprinus carpio: an in vitro study Journal of Fisheries of China 28 (6). - p. 628 - 632. Heselmans, M.; Reid, G.; Akkermans, L.M.A.; Savelkoul, H.F.J.; Timmerman, H.; Rombouts, F.M. (2005) Gut flora in health and disease : potential role of probiotics Current Issues in Intestinal Microbiology 6 (1). - p. 1 - 8. Huising, M.O.; Stet, R.J.M.; Savelkoul, H.F.J.; Kemenade, B.M.L. van (2004) The molecular evolution of the interleukin-1 family of cytokines; IL-18 in teleost fish Developmental and Comparative Immunology 28 (5). - p. 395 - 413. Huising, M.O.; Metz, J.R.; Schooten, C. van; Taverne- Thiele, J.J.; Hermsen, G.J.; Kemenade, B.M.L. van; Flik, G. (2004) Structural characterisation of a cyprinid (Cyprinus carpio L.) CRH, CRH-BP and CRH-R1, and the role of these proteins in the acute stress response Journal of Molecular Endocrinology 32 (3). - p. 627 - 648. Huising, M.O.; Meulen, T. van der; Flik, G.; Kemenade, B.M.L. van (2004) Three novel carp CXC chemokines are expressed early in ontogeny and at non-immune sites European Journal of Biochemistry 271 (20). - p. 4094 - 4106. Huising, M.O.; Kruiswijk, C.P.; Schijndel, J. van; Savelkoul, H.F.J.; Flik, G.; Verburg-van Kemenade, B.M.L. (2005) Multiple and highly divergent IL-11 genes in teleost fish Immunogenetics 57 (6). - p. 432 - 443. Huising, M.O.; Metz, J.R.; Mazon, A.F. de; Verburg-van Kemenade, B.M.L.; Flik, G. (2005) Regulation of the stress response in early vertebrates Annals of the New York Academy Of Sciences 1040 . - p. 345 - 347. Huising, M.O.; Flik, G. (2005) The remarkable conservation of corticotropin-releasing hormone (CRH)-binding protein in the honeybee (Apis mellifera) dates the CRH system to a common ancestor of insects and vertebrates Endocrinology 146 (5). - p. 2165 - 2170. Huising, M.O.; Geven, E.J.; Kruiswijk, C.P.; Nabuurs, S.B.; Stolte, H.H.; Spanings, F.A.; Kemenade, B.M.L. van; Flik, G. (2006) Increased leptin expression in common carp (Cyprinus carpio) after food intake but not after fasting or feeding to satiation Journal of Endocrinology 147 (12). - p. 5786 - 5797. Huising, M.O.; Schijndel, J. van; Kruiswijk, C.P.; Nabuurs, S.B.; Savelkoul, H.F.J.; Flik, G.; Kemenade, B.M.L. van (2006) The presence of multiple and differentially regulated interleukin-12p40 genes in bony fishes signifies an expansion of the vertebrate heterodimeric cytokine family Molecular Immunology 43 (10). - p. 1519 - 1533. Huttenhuis, B.T.; Grou, C.P.O.; Taverne- Thiele, J.J.; Taverne, N.; Rombout, J.H.W.M. (2006) Carp (Cyprinus carpio L.) innate immune factors are present before hatching Fish and Shellfish Immunology 20 (4). - p. 586 - 596. Huttenhuis, B.T.; Huising, M.O.; Meulen, T. van der; Oosterhoud, C.N. van; Alvarez Sánchez, N.; TaverneThiele, J.J.; Stroband, H.W.J.; Rombout, J.H.W.M. (2005) Rag expression identifies B and T cell lymphopoietic tissues during the development of common carp (Cyprinus carpio) Developmental and Comparative Immunology 29 (12). - p. 1033 - 1047. 138 WIAS Midterm Review 2007 Cell Biology and Immunology Huttenhuis, B.T.; Romano, N.; Oosterhoud, C.N. van; Taverne- Thiele, J.J.; Mastrolia, L.; Muiswinkel, W.B. van; Rombout, J.H.W.M. (2006) The ontogeny of mucosal immune cells in common carp (Cyprinus carpio L.) Anatomy and Embryology 211 (1). - p. 19 - 29. Huttenhuis, B.T.; Taverne- Thiele, J.J.; Grou, C.P.O.; Bergsma, J.; Saeij, J.P.J.; Nakayasu, C.; Rombout, J.H.W.M. (2006) Ontogeny of the common carp (Cyprinus carpio L.) innate immune system Developmental and Comparative Immunology 30 (6). - p. 557 - 574. Huttenhuis, B.T.; Ribeiro, A.; Bowden, T.J.; bavel, C. van; Taverne- Thiele, J.J.; Rombout, J.H.W.M. (2006) The effect of oral immuno-stimulation in juvenile carp (Cyprinus carpio L.) Fish and Shellfish Immunology 21 (3). - p. 261 - 271. Joerink, M.; Savelkoul, H.F.J.; Wiegertjes, G.F. (2006) Evolutionary conservation of alternative activation of macrophages: structural and functional characterization of arginase 1 and 2 in carp (Cyprinus carpio L.) Molecular Immunology 43 (8). - p. 1116 - 1128. Joerink, M.; Ribeiro, C.M.S.; Stet, R.J.M.; Hermsen, G.J.; Savelkoul, H.F.J.; Wiegertjes, G.F. (2006) Head kidney-derived macrophages of common carp (Cyprinus carpio L.) show plasticity and functional polarization upon differential stimulation Journal of Immunology 177 (1). - p. 61 - 69. Joerink, M.; Forlenza, M.; Ribeiro, C.M.S.; Vries, B.J. de; Savelkoul, H.F.J.; Wiegertjes, G.F. (2006) Differential macrophage polarisation during parasitic infections in common carp (Cyprinus carpio L.) Fish and Shellfish Immunology 21 (5). - p. 561 - 571. Kachamakova, N.M.; Irnazarow, I.; Parmentier, H.K.; Savelkoul, H.F.J.; Pilarczyk, A.; Wiegertjes, G.F. (2006) Genetic differences in natural antibody levels in common carp (Cyprinus carpio L.) Fish and Shellfish Immunology 21 (4). - p. 404 - 413. Kruiswijk, C.P.; Hermsen, G.J.; Fujiki, K.; Dixon, B.; Savelkoul, H.F.J.; Stet, R.J.M. (2004) Analysis of genomic and expressed major histocompatibility class Ia and class II genes in a hexaploid Lake Tana African 'large' barb individual (Barbus intermedius) Immunogenetics 55 (11). - p. 770 - 781. Kruiswijk, C.P.; Hermsen, G.J.; Heerwaarden, J. van; Dixon, B.; Savelkoul, H.F.J.; Stet, R.J.M. (2005) Major histocompatibility genes in the Lake Tana African large barb species flock: evidence for complete partitioning of class II B, but nog class I, genes among different species Immunogenetics 56 (12). - p. 894 - 908. Köllner, B.; Fischer, U.; Rombout, J.H.W.M.; Taverne- Thiele, J.J.; Hansen, J.D. (2004) Potential involvement of rainbow trout thrombocytes in immune functions: a study using a panel of monoclonal antibodies and RT-PCR Developmental and Comparative Immunology 28 (10). - p. 1049 - 1062. Lammers, A.; Klomp, M.E.V.; Nieuwland, M.G.B.; Savelkoul, H.F.J.; Parmentier, H.K. (2004) Adoptive transfer of natural antibodies to non-immunized chickens affects subsequent antigen-specific humoral and cellular immune responses Developmental and Comparative Immunology 28 (1). - p. 51 - 60. Lorenzen, N.; Evensen, O.; Cunningham, C.; Scapigliati, G.; Alvarez, M.C.; Roch, P.; Wiegertjes, G.F.; Buchmann, K.; Adams, A. (2006) Monitoring of the immune system of fish and shellfish Bulletin of the European Association of Fish Pathologists 26 (1). - p. 48 - 49. 139 WIAS Midterm Review 2007 Cell Biology and Immunology Lull Noguera, C.; Wichers, H.J.; Savelkoul, H.F.J. (2005) Antiinflammatory and immunomodulating properties of fungal metabolites Mediators of Inflammation 2005 (2). - p. 63 - 80. Mazon, A.F. de; Verburg-van Kemenade, B.M.L.; Flik, G.; Huising, M.O. (2006) Corticotropin-releasing hormone-receptor 1 (CRH-R1) and CRH-binding protein (CRH-BP) are expressed in the gills and skin of common carp (Cyprinus carpio L.) and respond to acute stress and infection Journal of Experimental Biology 209 (4). - p. 510 - 517. Metz, J.R.; Huising, M.O.; Meek, J.; Taverne- Thiele, J.J.; Wendelaar Bonga, S.E.; Flik, G. (2004) Localisation, expression and control of adrenocorticotropic hormone in the nucleus preopticus and pituitary gland of common carp (Cyprinus carpio L.) Journal of Endocrinology 182 (1). - p. 23 - 31. Metz, J.R.; Huising, M.O.; Leon, K.M.; Kemenade, B.M.L. van; Flik, G. (2006) Central and peripheral interleukin-1B and interleukin-1 receptor I expression and their role in the acute stress response of common carp, Cyprinus carpio L. Journal of Endocrinology 191 (1). - p. 25 - 35. Meulen, T. van der; Schipper, H.; Boogaart, J.G.M. van den; Huising, M.O.; Kranenbarg, S.; Leeuwen, J.L. van (2006) Endurance exercise differentially stimulates heart and axial muscle development in zebrafish (Danio rerio) American Journal of Physiology: Regulatory, Integrative and Comparative Physiology 291 . - p. R1040 - R1048. Murray, S.E.; Rosenzweig, H.L.; Johnson, M.; Huising, M.O.; Sawicki, K.; Stenzel-Poore, M.P. (2004) Overproduction of corticotropin-releasing hormone blocks germinal center formation: role of corticosterone and impaired follicular dendritic cell networks Journal of Neuroimmunology 156 (1-2). - p. 31 - 41. Parmentier, H.K.; Lammers, A.; Hoekman, J.J.; Vries Reilingh, G. de; Zaanen, I.T.A.; Savelkoul, H.F.J. (2004) Different levels of natural antibodies in chickens divergently selected for specific antibody responses Developmental and Comparative Immunology 28 (1). - p. 39 - 49. Parmentier, H.K.; Kieboom, W.J.A. van den; Nieuwland, M.G.B.; Vries Reilingh, G. de; Hangalapura, B.N.; Savelkoul, H.F.J.; Lammers, A. (2004) Differential effects of lipopolysaccharide and lipoteichoic acid on the primary antibody response to keyhole limpet hemocyanin of chickens selected for high or low antibody responses to sheep red blood cells Poultry Science 83 (7). - p. 1133 - 1139. Parmentier, H.K.; Baelmans, R.; Savelkoul, H.F.J.; Dorny, P.; Demey, F.; Berkvens, D. (2004) Serum haemolytic complement activities in 11 different MHC (B) typed chicken lines Veterinary Immunology and Immunopathology 100 (1-2). - p. 25 - 32. Roberts, M.L.; Lewis, J.W.; Wiegertjes, G.F.; Hoole, D. (2005) Interaction between the blood fluke, Sanguinicola inermis and humoral components of the immune response of carp, Cyprinus carpio Parasitology 131 (2). - p. 261 - 271. Rombout, J.H.W.M.; Huttenhuis, B.T.; Picchietti, S.; Scapigliati, G. (2005) Phylogeny and ontogeny of fish leucocytes Fish and Shellfish Immunology 19 (5 sp. is.). - p. 441 - 455. Ruzzante, D.E.; Mariani, S.; Bekkevold, D.; André, C.; Mosegaard, H.; Clausen, L.A.W.; Dahlgren, T.G.; Hutchinson, W.F.; Hatfield, E.M.C.; Torstensen, E.; Brigham, J.; Simmonds, E.J.; Laikre, L.; Larsson, L.C.; Stet, R.J.M.; Ryman, N.; Carvalho, G.R. (2006) Biocomplexity in a highly migratory pelagic marine fish , Atlantic herring Proceedings of the Royal Society. B: Biological Sciences 273 (1593). - p. 1459 - 1464. 140 WIAS Midterm Review 2007 Cell Biology and Immunology Savelkoul, H.F.J. (2006) De hygiënehypothese : vruchtbaar concept in immunologisch onderzoek Nederlands Tijdschrift voor Geneeskunde 150 (47). - p. 2596. Stet, R.J.M.; Arts, J.A.J. (2005) Immune functions in crustaceans: lessons from flies Developments in Biologicals 121 . - p. 33 - 44. Stet, R.J.M.; Hermsen, G.J.; Westphal, A.H.; Jukes, J.; Engelsma, M.Y.; Verburg-van Kemenade, B.M.L.; Dortmans, J.C.F.M.; Aveiro, J.; Savelkoul, H.F.J. (2005) Novel immunoglobulin-like transcripts in teleost fish encode polymorphic receptors with cytoplasmic ITAM or ITIM an a new structural Ig domain similar to the natural cytotoxicity receptor NKp44 Immunogenetics 57 (1-2). - p. 77 - 89. Stolte, H.H.; Kemenade, B.M.L. van; Savelkoul, H.F.J.; Flik, G. (2006) Evolution of glucocorticoid receptors with different glucocorticoid sensitivity Journal of Endocrinology 190 (1). - p. 17 - 28. Störk, S.; Feelders, R.A.; Beld, A.W. van den; Steyerberg, E.W.; Savelkoul, H.F.J.; Lamberts, S.W.J.; Grobbee, D.E.; Bots, M.L. (2006) Prediction of mortality risk in the elderly, clinical research study The American Journal of Medicine 119 (6). - p. 519 - 525. Sun, N.; Yang, G.; Zhao, H.; Savelkoul, H.F.J.; An, L. (2005) Multidose streptozotocin induction of diabetes in BALB/c mice induces a dominant oxidative macrophage and a conversion of TH1 to TH2 phenotypes during disease progression Mediators of Inflammation 2005 (4). - p. 202 - 209. Verhoef, J.C.M.; West, C.E. (2005) Validity of the relative-dose-response test and the modified-relative-dose-response test as indicators of vitamin A stores in liver 1-4 American Journal of Clinical Nutrition 81 (4). - p. 835 - 839. Weijden, W.J. van der; Savelkoul, H.F.J.; Hin, K.J.; Wilt, J. de (2004) Dierziektebeleid spot met Darwin Tijdschrift voor Diergeneeskunde 129 (12). - p. 418 - 420. Wichers, H.J.; Beijer, T. de; Savelkoul, H.F.J.; Amerongen, A. van (2004) The major peanut allergen Ara h 1 and its cleaved-off N-terminal peptide; possible implications for peanut allergen detection Journal of Agricultural and Food Chemistry 52 (15.). - p. 4903 - 4907. Wiegertjes, G.F.; Joerink, M. (2004) Macrophage polarization in the immune response to parasite / Section I : Keynotes Bulletin of the European Association of Fish Pathologists 24 (1). - p. 5 - 10. Wiegertjes, G.F.; Forlenza, M.; Joerink, M.; Scharsack, J.P. (2005) Parasite infections revisited Developmental and Comparative Immunology 29 (9). - p. 749 - 758. Wiegertjes, G.F.; Steinhagen, D.; Nielsen, M.E.; Hoole, D.; Wendelaar Bonga, S.E.; Irnazarow, I. (2006) Interactions between parasites and their fish host Bulletin of the European Association of Fish Pathologists 26 (1). - p. 53 - 54. 141 WIAS Midterm Review 2007 Cell Biology and Immunology Refereed book chapters Gilissen, L.J.W.J.; Wichers, H.J.; Savelkoul, H.F.J.; Beers, G. (2005) Future developments in allergy prevention : a matter of integrating medical, natural and social sciences In: Allergy Matters : new approaches to allergy prevention and management / Gilissen, L.J.E.J. Dr., Wichers, H.J. Prof.dr., Savelkoul, H.F.J. Prof.dr.ir., Bogers, J.R., . - Springer - Life Sciences, (Wageningen UR Frontis Series 10) - p. 3 - 10. Jeurink, P.V.; Savelkoul, H.F.J. (2005) Induction and regulation of allergen-specific IgE In: Allergy Matters : new approaches to allergy prevention and management / Gilissen, L.J.E.J. Dr., Wichers, H.J. Prof.dr., Savelkoul, H.F.J. Prof.dr.ir., Bogers, R.J., . - Springer - Life Sciences, (Wageningen UR Frontis Series 10) - p. 13 - 27. Joerink, M.; Saeij, J.P.J.; Stafford, J.L.; Belosevic, M.; Wiegertjes, G.F. (2004) Animal models for the study of innate immunity: protozoan infections in fish In: Host-Parasite Interactions / Wiegertjes, G.F. Dr.ir., Flik, Prof. G., . - Oxon, UK : BIOS Scientific Publishers, Taylor & Francis Group, (Experimental Biology Reviews ) - p. 67 - 89. Non-refereed book chapters Muiswinkel, W.B. van; Vervoorn-Van der Wal, B. (2006) The immune system of fish In: Fish Diseases and Disorders / Woo, P.T.K., . - CAB International, - p. 678 - 701. Savelkoul, H.F.J.; Cameron, S.B.; Chow, A.W. (2005) Maturation of the immune response In: Encyclopedic Reference of Immunotoxicology / Werner, H.W., . - Heidelberg : Springer, - p. np. Monographs Gilissen, L.J.W.J.; Wichers, H.J.; Savelkoul, H.F.J.; Bogers, R.J. (2006) Allergy matters: new approaches to allergy prevention and management: the international conference on allergy prevention, Wageningen, The Netherlands 4-6 February 2004 Berlin [etc.] : Springer, (Wageningen UR Frontis Series 10) - p. 205. Wiegertjes, G.F.; Flik, G. (2004) Host-Parasite Interactions Oxon, UK : BIOS Scientific Publishers, Taylor & Francis Group, (Experimental Biology Reviews ) - p. 255. Proceedings (Full papers only) Savelkoul, H.F.J. (2004) Preventie van een allergie: een gezondheidsissue In: Syllabus symposium - Nutricia, Duik in de wereld van allergiepreventie, recente voedingskundige inzichten en toekomstige ontwikkelingen, Harderwijk 14-10-2004. - Syllabus symposium - Nutricia Nederland N.V. . - p. 4 - 8.Harderwijk : - p. 4 - 8. Waalwijk, C.; Lee, T.A.J. van der; Howlett, B.; Arts, J.A.J.; Vries, P.M. de; Mendes, O.; Hesselink, T.; Verstappen, E.C.P.; Goodwin, S.B.; Kema, G.H.J. (2004) The mating type locus, an example of synteny among ascomycetes In: Global insights into the Septoria and Stagonospora Diseases of Cereals. Proceedings of the 6th International Symposium on Septoria and Stagonospora Diseases of Cereals. 8-12 December, 2003, Tunis, Tunisia. - Tunis : CIMMYT, - p. 105 - 106. 142 WIAS Midterm Review 2007 Cell Biology and Immunology Scientific reports Muiswinkel, W.B. van (2006) Final evaluation report NWO-LNV priority programme "limits to animal welfare and production" : (Chapter 3) Research on fish health problems in aquaculture The Hague : NWO, - p. 18 - 26. Professional publications and products (incl. patents) Dubois, A.E.J.; Wichers, H.J.; Savelkoul, H.F.J. (2006) Allergie bij kinderen : belang van goede diagnose en mogelijkheden om er iets aan te doen Reactie : informatie en voorlichting over alle mogelijke vormen van allergie 2 (3). Jeurink, P.V.; Savelkoul, H.F.J. (2004) Kruisreacties bij voedselallergie Voeding Nu 6 (6). - p. 23 - 26. Rombout, J.H.W.M. (2006) Infectiebestrijding bij kweekvis Cahiers bio-wetenschappen en maatschappij 25 (2). - p. 57 - 60. Savelkoul, H.F.J. (2004) Voedselallergie, relatie tussen klachten en voedsel alleen aantoonbaar via provocatietest Medisch Contact 59 (52). - p. 2080 - 2083. Savelkoul, H.F.J. (2005) Allergie : ook voor allergie geldt: voorkomen is beter dan genezen Patient Care 32 (10). - p. 56 - 58. Savelkoul, H.F.J. (2005) De darm, zijn flora en het brein Folia Orthica 2005 (2). - p. 6 - 9. Savelkoul, H.F.J.; Duiverman, E.J.; Kneepkens, C.M.F. (2006) Probiotica en Prebiotica (hoofdstuk 27) In: Werkboek Kinderallergologie / Brand, P.L.P., Kneepkens, C.M.F., Laag, J. van der, Rikkers-Mutsaerts, E.R.V.M., . - Amsterdam : VU University Press, (Werkboeken Kindergeneeskunde ) - p. 192 - 196. Savelkoul, H.F.J.; Dubois, A.E.J. (2006) Allergenen (hoofdstuk 2) In: Werkboek Kinderallergologie / Brands, P.L.P., Kneepkens, C.M.F, Laag, J. van der, Rikkers-Mutsaerts, E.R.V.M., . - Amsterdam : VU University Press, (Werkboeken Kindergeneeskunde ) - p. 23 - 28. Wichers, H.J. (2006) Het allergeen centraal! Reactie : informatie en voorlichting over alle mogelijke vormen van allergie 2 (2). Publications for the general public Jeurink, P.V.; Savelkoul, H.F.J. (2005) Kruisreacties bij voedselallergie NVOX Tijdschrift voor Natuurwetenschap op School 30 (1). - p. 3 - 5. Muiswinkel, W.B. van (2004) Onbekend maakt onbemind, geschiedenis van de immunologie NVOX Tijdschrift voor Natuurwetenschap op School 8 . - p. 406 - 407. 143 WIAS Midterm Review 2007 Cell Biology and Immunology Savelkoul, H.F.J. (2004) Strijd tegen allergie Algemeen Dagblad (2004-02-03). - p. 1. Savelkoul, H.F.J. (2004) Hatsjie! Intermediair 26 . - p. 41 - 43. Savelkoul, H.F.J. (2004) De darmflora van een autist Limburgs Dagblad (2004-07-21). Savelkoul, H.F.J. (2004) Autisme is meer dan een hersenziekte Weleda Artsen Forum (24). - p. 1 - 3. Savelkoul, H.F.J.; Gilissen, L.J.W.J. (2004) Allergie: overgevoeligheid voor voedsel genetisch aangepakt Resource: magazine van Wageningen Universiteit & Researchcentrum (13). - p. 12 - 14. Savelkoul, H.F.J. (2005) Allergie : een probleem voor mens en dier Animal Sciences Krant (2005-10-01). - p. 2. 144 WIAS Midterm Review 2007 Experimental Zoology Experimental Zoology (EZO) Mission The Experimental Zoology group investigates relationships between form and function at the organ and organismal levels to explain structural changes on evolutionary and developmental time scales. The focus is on animal mechanics as applied to developmental biology, ecomorphology and animal welfare. EZO offers an integrated zoology programme to students in Biology, Animal Siences, Human Nutrion and Health and others, and provides a stimulating environment for MSc and PhD students, postdocs and our research and technical staff. 1. Reflection on the previous assessment Overall programme and quality: The peer review committee concluded that the Experimental Zoology Group has rapidly developed over the past five years. The committee was impressed by the quality and dynamism of the research, the sources that have been acquired, and the culture of collaboration, as well as the high profile the Group has attained internationally. Overall, the group is flourishing. We maintained our biomechanics focus and further strengthened the quality and international profile. We have again published in high-ranking journals such as Nature (one paper in 2004, and, outside the midterm review period, one in 2007) and Science (2 publications in 2004). We enhanced our profile by e.g. organizing in 2005 the 12th Benelux congress of Zoology in Wageningen and the Biomechanics in Nature Track at the World Congress of Biomechanics in 2006 (Munich). We have edited two special Journal Issues for Animal Biology. The impact of Animal Biology continues to rise under the editorship of Muller (from about 0.5 in 2004 to about 0.95 in 2006). Our PhD students (Elemans, Van der Meulen, Lentink) received several international and national awards for their research. The chair holder was elected in the World Council of Biomechanics in 2006. We strengthened our programmes on horse biomechanics and biofluid dynamics (fish swimming, bird flight, sponge filtering). We increased our (already significant) exposure in the national and international press, including newspapers, magazines, websites, radio, and television. We have also attracted many more MSc students from Biology, Animal Sciences and Delft University of Technology. The infrastructure for biomechanics research was further improved with new experimental set ups and new state of the art high-speed video equipment. We will be financially awarded in 2008 by the Executive Board for the high quality of our research and teaching, with 3 lecturers in the top 25 of the University. Productivity: The review committee noted that illness and heavy teaching loads had adversely affected productivity. The committee concluded that the group needs nurturing to further enhance its international reputation and to exploit its great potential. They advised to expand the group through investment in senior molecular developmental biology expertise, without diluting the core of organismal biology. Over the last three years, productivity was continued approximately at the level of the previous review period. The number of externally funded projects is relatively low compared to other WIAS groups. The opportunities for funding of biomechanics research are more limited than for most other research fields. The Animal Mechanics groups in Europe are all relatively small. EZO is among the largest Animal Mechanics groups in Europe. The continuing high teaching loads (the highest load within the department) and relatively high share in general University duties (e.g. membership of academic board, Chair of the Biology BSc-MSc programme committee, building committee Forum, and several others) reduced the 145 WIAS Midterm Review 2007 Experimental Zoology time available for research The recommended investment in senior molecular developmental biology staff was not yet implemented by the management of the Department. Under the circumstances, we have deliberately chosen to maintain a high quality at the cost of productivity and the number of projects, but foresee a rising productivity in 2008. This expectation is based on the following analysis. We started two PhD projects on horse biomechanics, and collaborate now with institutes in Deurne and Utrecht to develop a high-tech measurement facility for horse biomechanics. Thus, we invested in horse biomechanics (financially supported by the Department), and expect to generate significant scientific output in this area from 2008 onwards. We started collaboration with the animal husbandry group in Lelystad on biomechanics and animal health. As a result, a newly appointed bioengineer will start work on biomechanics of health and welfare in 2008. A proposal to install a 0.0 Chair in molecular developmental biology in our group was granted by the Executive Board (appointment expected early 2008). This will strengthen our developmental biology programme, that aims to study the influence of mechanical loads on molecular expressions and tissue differentiation. Financial rewards for teaching have recently improved considerably. We are able to appoint a new member of staff with a high research profile in 2008. We have slightly reduced our input in teaching starting medio 2007. From 2007 onwards, we raised the number of submitted research proposals. We aim at an inflow of a minimum of 2 PhD students per year. Effectively, we can conclude that it took about 3 to 4 years to implement the recommendations by the review committee. Relevance: There were no major changes since 2004. We continued to focus on biomechanics and development and worked on a range of fundamental topics with applied aspects. Health related research was further promoted through collaboration with groups of ASG Lelystad, Bioprocess Engineering (WU) and the Hubrecht Institute (Utrecht). We raised our efforts in Bioinspired design, a rapidly expanding field. The input in ecomorphology was reduced. Viability and feasibility: We have improved this aspect by the actions listed under productivity. 146 WIAS Midterm Review 2007 Experimental Zoology 2 Research input The overall size of the group was roughly maintained compared to the previous review period. New PhD projects were started on Biofluid dynamics of swimming and flight (Lentink, NWO-ALW funded), Osteochondrosis in horses (Van Turnhout, in collaboration with the Animal Breeding and Genetics group), Interaction between rider and horse (De Cocq, collaboration with HAS Den Bosch), and Fluid dynamics of sponges (Mendola, collaboration with Marine Biotechnology, WU). Postdoc work continued on biomechanics of swimming (NWO-ALW funded). Table 2.1 Research staff Name and present title Period of appointment Fte* Coll. Start End Full professors Prof.dr.ir. J.L. van Leeuwen Sep 1999 1.0 Associate professors Dr. M. Muller Sep 1999 1.0 Dr. F. Sibbing Mar 1973 Jan 2006 1.0 Jan 2006 0.8 Assistant professor Dr. S. Kranenbarg Nov 2004 0.5 Dr. U.K. Müller Aug 2003 Nov 2004 0.6 Non-tenured staff Dr. U.K. Müller Nov 2004 Jul 2007 1.0 Dr. S. Kranenbarg Jan 2004 Nov 2004 1.0 Dr. ir. C.W. Spoor Jun 2005 Jun 2007 0.5 Employed PhD students C.P.H. Elemans Apr 2000 Nov 2004 1.0 T. van der Meulen Oct 2000 Dec 2005 1.0 D. Lentink Nov 2004 1.0 M. van Turnhout Aug 2005 1.0 ABG Guest PhD students P. de Cocq Jan 2006 0.5 HAS D. Mendola Sep 2005 0.5 PRE * fte regards the total appointment; tenured staff has approximately 40% available for research Table 2.2 Research input in fte by staff, postdocs and PhD students Average 1999-2003 Tenured staff 1.1 1.5 1.4 1.2 Postdocs and other non-tenured staff 1.6 1.2 1.2 1.1 AIO/OIOs 1.3 1.3 1.5 2.2 Other PhD students * 0.0 0.0 0.3 0.5 Total 4.0 4.0 4.3 5.0 * research time of external and sandwich PhD students is counted only when spent in Wageningen 2004 2005 2006 Table 2.3 Research funding in fte by staff, postdocs and PhD students 2004 University funded NOW funded Contract funded Total 2.0 1.2 0.8 4.0 2005 3.2 0.8 0.0 4.0 2006 3.2 0.8 0.3 4.3 Average 1999-2003 3.2 1.6 0.7 5.5 147 WIAS Midterm Review 2007 Experimental Zoology 3 Overview of the results The highlights of the review period were the paper on the role of superfast muscles in the vocalizing doves (Nature), the papers on the elastic mechanism of the chameleon tongue (Proceedings B R. Soc. and Science), the paper on bird flight (Science) and the cum laude PhD of C.P.H. Elemans. Several papers were published on the Lake Tana ecomorphology project. In 2007, we published in Nature on flight in swifts (outside the review period). Table 3.1 Publication output 2004 PhD theses Academic publications in refereed journals in other journals refereed book chapters non-refereed book chapters monographs edited books and special issues proceedings (full papers only) scientific reports Total academic publications Professional publications and products (incl. IP) Publications for the general public Table 3.2 Number of publications per fte research input Per fte tenured staff Refereed journals Academic publications Per fte total research input Refereed journals Academic publications 3.0 3.3 2.0 2.8 1.6 2.1 2.1 2.4 2004 10.9 11.8 2005 5.3 7.3 2006 5.0 6.4 Average 1999-2003 8.7 9.8 1 12 0 0 0 0 0 1 0 13 1 1 2005 1 8 0 1 0 0 1 1 0 11 1 1 2006 0 7 0 0 0 1 1 0 0 9 3 0 Average 1999-2003 1.2 10.4 0.6 0.8 0.0 0.0 0.0 0.2 0.0 11.8 2 0 148 WIAS Midterm Review 2007 Experimental Zoology 4 Analysis, perspectives and expectations of the Chair group Strengths • • • • • • • • • • • • • • • Threats • • • • • Strong international position in animal mechanics. Publications in journals with very high impact. Well-developed match of experimental and theoretical approaches. Unique niche in biophysics of development. Generic deductive approach allows a wide range of topics to be tackled. Attractive research environment for excellent PhD and MSc students. Limited external funding and limited number of PhD projects because of emphasis on fundamental aspects. Low critical mass, but favourable compared with most other European groups. Weak interaction with industry. Rising societal concern for animal welfare. Within ASG, the new strategy of Animal husbandry group in Lelystad, including more attention for mechanics related health problems. Growing attention for the horse industry and intensification of partnership with HAS Den Bosch, and Hippic Centre in Deurne. Rapidly expanding field of Bioinspired design (Biomimetics). Growing attention for systems analysis in developmental biology, and more emphasis on developmental biology in the WU Biology programme in the near future. Growing attention for fluid dynamics of sponges and corals (in relation to global warming). Current focus on molecular research in biology. Biomechanics is not (yet) generally considered as an important issue in animal health and welfare. Continuous pressure on the technical work shop of the department (a vital factor to extend our unique experimental environment). Relatively few financial opportunities for fundamental biomechanics research. Administrative load and overhead. Weaknesses Opportunities 149 WIAS Midterm Review 2007 Experimental Zoology Analysis Goals Strategy Spent more time on grant proposals to increase the number of PhD projects. • Continue to increase the collaboration with the Hubrecht Institute on developmental biology. • Intensify the collaboration with Technical universities, including Caltech, TU-Delft and TU-Eindhoven, and groups within WU (e.g. ABG, Molec. Biol., Biochemistry, Physical Chemistry, Bioprocess Engineering). • Continue and strengthen research environment for high potentials, attract new talented researchers. • Expand interaction with companies, such as Noldus Information technology. • Our main goal for the coming years is to increase the number of PhD students and Post-docs. • Become partner in European Biomimetics network. • Maintain strong international position on animal mechanics. • Strengthen position in biophysics and systems analysis of development. We generally continue our strategy outlined in the peer review documentation of 2004, which resulted in high quality output. However, we will put a relatively greater effort into raising of grants to improve the number of externally funded projects. We have noted the recent expansion in Bioinspired design and have taken initiatives to become partner in a European network. We aim to strengthen our position in Developmental biology by the appointment of a 0.0 chair in 2008. • 150 WIAS Midterm Review 2007 Experimental Zoology Annex Publications 2004-2006 PhD theses Elemans, C.P.H. (2004 – cum laude) How do birds sing? sound analysis - mechanical modelling - muscular control WUR Wageningen UR. Promotor(en): Leeuwen, Prof dr ir J.L. van, co-promotor(en): Muller, Dr M.; Larsen, O.N.. - Wageningen : Ponsen & Looijen, - p. 144. Meulen, T. van der (2005) Epigenetics of the locomotory system in zebrafish WUR Wageningen UR. Promotor(en): Leeuwen, Prof dr ir J.L. van, co-promotor(en): Kranenbarg, Dr ir S.; Franssen, Dr H.G.J.M.. - Wageningen : - p. 191. Scientific articles in refereed journals Dejen, E.; Osse, J.W.M.; Sibbing, F.A. (2004) Ecological position of 'small barbs' and their potential for fisheries: an option to reduce fishing pressure on 'large barbs' of Lake Tana (Ethiopia)? Aquatic Ecosystem Health and Management 6 (3). - p. 337 - 342. Dejen, E.; Vijverberg, J.; Nagelkerke, L.A.J.; Sibbing, F.A. (2004) Temporal and spatial distribution of microcrustacean zooplankton in relation to turbidity and other environmental factors in a large tropical lake (L. Tana, Ethiopia) Hydrobiologia 513 (1-3). - p. 39 - 49. Dejen, E.; Vijverberg, J.; Graaf, M. de; Sibbing, F.A. (2006) Predicting and testing resource partitioning in a tropical fish assemblage of zooplanktivorous 'barbs': an ecomorphological approach Journal of Fish Biology 69 (5). - p. 1356 - 1378. Elemans, C.P.H.; Spierts, I.L.Y.; Müller, U.K.; Leeuwen, J.L. van; Goller, F. (2004) Superfast muscles control dove's trill Nature 431 (7005). - p. 146. Elemans, C.P.H.; Spierts, I.L.Y.; Hendriks, M.; Schipper, H.; Müller, U.K.; Leeuwen, J.L. van (2006) Syringeal muscles fit the trill in ring doves (Streptopelia risoria L.) Journal of Experimental Biology 209 (5). - p. 965 - 977. Ginneken, V.J.T. van; Antonissen, E.; Müller, U.K.; Booms, G.H.R.; Eding, E.H.; Verreth, J.A.J.; Thillart, G. van den (2005) Eel migration to the Sargasso: remarkably high swimming efficiency and low energy costs Journal of Experimental Biology 208 (7). - p. 1329 - 1335. Graaf, M. de; Machiels, M.A.M.; Wudneh, T.; Sibbing, F.A. (2004) Length at maturity and gillnet selectivity of Lake Tana's Barbus species (Ethiopia): Implications for management and conservation Aquatic Ecosystem Health and Management 6 (3). - p. 325 - 336. Graaf, M. de; Machiels, M.A.M.; Wudneh, T.; Sibbing, F.A. (2004) Declining stocks of Lake Tana's endemic Barbus species flock (Pisces, Cyprinidae): natural variation or human impact? Biological Conservation 116 (2). - p. 277 - 287. Graaf, M. de; Nentwich, E.D.; Osse, J.W.M.; Sibbing, F.A. (2005) Lacustrine spawning: is this a new reproductive strategy among 'large' African cyprinid fishes? Journal of Fish Biology 66 (5). - p. 1214 - 1236. 151 WIAS Midterm Review 2007 Experimental Zoology Graaf, M. de; Zwieten, P.A.M. van; Machiels, M.A.M.; Lemma, E.; Wudneh, T.; Dejen, E.; Sibbing, F.A. (2006) Vulnerability to a small-scale commercial fishery of Lake Tana's (Ethiopia) endemic Labeobarbus compared with African catfish and Nile tilapia: An example of recruitment-overfishing? Fisheries Research 82 (1-3). - p. 304 - 318. Groot, J.H. de.; Leeuwen, J.L. van (2004) Evidence for an elastic projection mechanism in the chameleon tongue. Proceedings of the Royal Society Biological Sciences 271 (1540). - p. 761 - 770. Groot, J.H. de; Sluijs, I. van der; Snelderwaard, P.C.; Leeuwen, J.L. van (2004) A three-dimensional kinematic analysis of tongue flicking in Python molurus Journal of Experimental Biology 207 (5). - p. 827 - 839. Huising, M.O.; Meulen, T. van der; Flik, G.; Kemenade, B.M.L. van (2004) Three novel carp CXC chemokines are expressed early in ontogeny and at non-immune sites European Journal of Biochemistry 271 (20). - p. 4094 - 4106. Huttenhuis, B.T.; Huising, M.O.; Meulen, T. van der; Oosterhoud, C.N. van; Alvarez Sánchez, N.; TaverneThiele, J.J.; Stroband, H.W.J.; Rombout, J.H.W.M. (2005) Rag expression identifies B and T cell lymphopoietic tissues during the development of common carp (Cyprinus carpio) Developmental and Comparative Immunology 29 (12). - p. 1033 - 1047. Kranenbarg, S.; Cleynenbreugel, T. van; Schipper, H.; Leeuwen, J.L. van (2005) Adaptive bone formation in acellular vertebrae of sea bass (Dicentrarchus labrax L.) Journal of Experimental Biology 208 (9). - p. 3493 - 3502. Kranenbarg, S.; Waarsing, J.H.; Muller, M.; Weinans, H.; Leeuwen, J.L. van (2005) Lordotic vertebrae in sea bass (Dicentrarchus labrax L.) are adapted to increased loads Journal of Biomechanics 38 (6). - p. 1239 - 1246. Kranenbarg, S.; Leeuwen J.L. van (2006) Preface. Animal Biology 56(4). p. 423-424. Larsen, O.N.; Goller, F.; Leeuwen, J.L. van (2006) Aspects of syringeal mechanics in avian phonation Acta zoologica sinica 52 (Suppl. 1). - p. 478 - 481. Meulen, T. van der; Kranenbarg, S.; Schipper, H.; Samallo, J.; Leeuwen, J.L. van; Franssen, H. (2005) Identification and characterisation of two runx2 homologues in zebrafish with different expression patterns Biochimica et Biophysica Acta 1729 (2). - p. 105 - 117. Meulen, T. van der; Schipper, H.; Leeuwen, J.L. van; Kranenbarg, S. (2005) Effects of decreased muscle activity on developing axial musculature in nic b107 mutant zebrafish (Danio rerio) Journal of Experimental Biology 208 (19). - p. 3675 - 3687. Meulen, T. van der; Schipper, H.; Boogaart, J.G.M. van den; Huising, M.O.; Kranenbarg, S.; Leeuwen, J.L. van (2006) Endurance exercise differentially stimulates heart and axial muscle development in zebrafish (Danio rerio) American Journal of Physiology: Regulatory, Integrative and Comparative Physiology 291 . - p. R1040 - R1048. Müller, U.K.; Leeuwen, J.L. van (2004) Swimming of larval zebrafish: ontogeny of body waves and implications for locomotory development Journal of Experimental Biology 207 . - p. 853 - 868. 152 WIAS Midterm Review 2007 Experimental Zoology Müller, U.K.; Kranenbarg, S. (2004) Power at the tip of the tongue Science 304 (5668). - p. 217 - 219. Müller, U.K.; Lentink, D. (2004) Turning on a Dime Science 306 . - p. 1899 - 1900. Müller, U.K. (2005) Preface Animal Biology 55 (1). - p. 1 - 2. Müller, U.K.; Leeuwen, J.L. van (2006) Undulatory fish swimming : from muscles to flow Fish and Fisheries 7 (2). - p. 84 - 103. Palstra, A.P.; Graaf, M. de; Sibbing, F.A. (2004) Riverine spawning and reproductive segregation in a lacustrine cyprinid species flock, facilitated by homing? Animal Biology 54 (4). - p. 393 - 415. Refereed book chapters Sibbing, F.A.; Witte, F. (2005) Adaptations to feeding in herbivorous fish (Cyprinidae and cichlidae) In: Periphyton; Ecology, Exploitation and Management / Azim, M.E., Verdegem, M.C.J., Dam, A.A. van, Beveridge, M.C.M., . - Oxfordshire : CABI Publishing, - p. 319. Monographs Dejen, E.; Graaf, M. de; Nagelkerke, L.A.J.; Sibbing, F.A.; Wudneh, T.; Osse, J.W.M. (2006) Lake Tana Fishery and Sustainable Development Bahir Dar, Ethiopia : Amhara Region Agricultural Research Institute & University, - p. 84. Edited books and journal volumes Müller, U.K.; Spierts, I.Y.L.; Leeuwen, J.L. van, Guest Editors (2005) Special issue on “Locomotory muscle function and control”. Animal Biology 55(1). p. 1-99. Kranenbarg, S.; Leeuwen, J.L. van, Guest Editors (2006) Special issue on the occasion of the 12th Benelux Congress of Zoology”. Animal Biology 56(4). p. 423-549 Proceedings (Full papers only) Muijres, F.T.; Lentink, D.; Oudheusden, B.W. van; Donker-Duyvis, F.J.; Leeuwen, J.L. van (2005) Visualization of vortex wake interactions of a flapping foil In: Proceedings of PSFVIP-5, 5th Pacific Symposium on Flow Visualization and Image Processing, Daydream Island, Australia, 27-29 September 2005. Osse, J.W.M.; Boogaart, J.G.M. van den (2004) Allometric Growth in Fish Larvae: Timing and Function In: The Development of Form and Function in Fishes and the Question of Larval Adaptation. - [S.l.] : American Fisheries Society, - p. 167 - 194. 153 WIAS Midterm Review 2007 Experimental Zoology Professional publications and products (incl. patents) Dejen, E.; Vijverberg, J.; Sibbing, F.A. (2006) Spatial and temporal variation of cestode infection and its effect on two small barbs (Barbus humilis and B. tanapelagius) in Lake Tana, Ethiopia Hydrobiologia 556 (1). - p. 109 - 117. Hogeveen, H.; Eerdenburg, F. van; Cocq, P. de (2005) Elk jaar een kalf blijft optimaal Veeteelt 22 (21). - p. 12 - 14. Leeuwen, J.L. van; Kranenbarg, S.; Boogaart, J.G.M. van den; Muller, M. (2006) Zuurstofopname in de vroege ontwikkeling van vissen Aquacultuur 21 (2). - p. 26 - 29. Sibbing, F.A.; Junge, J. (2005) Over voedselverwerking en selectie De Karper 66 . - p. 31 - 47. Spierts, I.L.Y. (2004) Capita selecta: het mysterie van de palingtrek Aquacultuur 2 . - p. 14 - 15. Stickland, N.C.; Koumoundouros, G.; Sfakianakis, D.G.; Georgakopoulos, E.; Papadakis, G.; Divanach, P.; Kentouri, M.; Guedes, M.J.; Carvalho, A.P.; Olivateles, A.; Ashton, C.; Weaden, J.; Goldspink, G.; Fauconneau, B.; Kacem, A.; Kranenbarg, S.; Leeuwen, J.L. van (2005) Solving spinal deformity problems in Mediterranean sea bass Fish Farmer 28 (1). - p. 22 - 24. Publications for the general public Sibbing, F.A. (2004) Evolutie betrapt in de bron van de Nijl Bionieuws 2004 (8). - p. 8 - 9. 154 WIAS Midterm Review 2007 Human and Animal Physiology Human and Animal Physiology (HAP) 1 Reflection on the previous assessment In the peer review of 2004 it was stated that due to the reduction in staff a decision was made to concentrate the research of the group on the area of reproductive neuro-endocrinology, and that there were plans to fill the vacant chair position with a neuro-endocrinologist. Unfortunately, it appeared impossible to attract a suitable neuro-endocrinologist to lead the group. Nevertheless, the research in the area of reproductive neuro-endocrinology has been continued and expanded, although the focus has moved more towards the direction of reproductive endocrinology in relation to nutrition and metabolic health. This line of research is very promising, especially the observations on the role of leptin in the initiation of puberty under hypothyroid conditions have been received enthusiastically during presentations on international conferences. Several publication have either been submitted or are in preparation and should contribute to a further increase in the research output of the group. Collaborations have been initiated within the Department and elsewhere that offer opportunities for the future The work on carbohydrate and protein metabolism has been discontinued, as suggested by the peer review committee. In line with the new research themes of Wageningen University a new project was initiated in co-operation with the HAN (Hogeschool Arnhem-Nijmegen), investigating the energetic and metabolic consequences of exercise under high altitude conditions in relation to food intake. With the expertise already present within the Group, it will be possible to expand this area of research with a more indepth approach by investigating the consequences of training and weight loss under these conditions at the cellular and subcellular level. A point of concern of the peer review committee was the decline in size of the Group and as a consequence the low productivity. The committee suggested a direct investment in recourses to build up a critical mass to safeguard the development of the field of research. Unfortunately such an investment has not been made thus far. The group has even further decreased in size, while the teaching obligations have remained the same. We have chosen to maintain our input in the teaching program of Wageningen University, because we hope that in the near future a new chair in Human and Animal Physiology will be attacted and that the size of the group will expand again. A new profile for a chair in Human and Animal Physiology has been developed and is currently being advertised. The research of the new chair should focus on metabolic and biochemical pathways that may explain why environmental factors (climate, stress, nutrition), possibly in combination with genetic predisposition, impact upon health, welfare and productivity. Following recommendation of peer review committee the Human and Animal Physiology Group has moved from the location Haarweg to the Zodiac building in May 2006. This has opened possibilities for the initiation of new collaborations. Since the move of the group collaborations have started with the Adaptation Physiology group, the Animal Nutrition group and the Animal Breeding and Genetics group. The management of the Department of Animal Sciences has, after ample consideration, decided not to merge the Human and Animal Physiology group with another chair group, as recommended by the peer review committee. 155 WIAS Midterm Review 2007 Human and Animal Physiology 2 Research input Compared to the situation in the period 1999-2003 the size of the research staff of HAP has decreased due to the fact that the full professor and two assistant professors have left. As a consequence the teaching load of the associate professor has increased considerably, resulting in a decrease in research input to 0.9 fte in 2006. A PhD student has participated in the teaching programme of the chair group temporarily, which has led to a further decrease in the research input of the group (from 1.0 to 0.2 fte, in the period 01-02-2006 till 01-06-2007). Furthermore the only assistant professor has been appointed as a lecturer at the HAN (0.5 fte from 01-05-2007 onwards), and thus reducing his contribution to the research programme of the group. Fortunately, a new assistant professor has been appointed recently (01-04-2007) for a period of two years who will contribute 0.3 fte to the research input of the chair group. A new Chair for the group with expertise in molecular biology has been advertised and will hopefully start in 2008. Table 2.1 Research staff Name and present title Full professor Associate professor Assistant professor Dr. D. van der Heide Dr. K. Teerds Dr. V. Schreurs Dr. B. van de Heijning Dr. E. van der Beek PhD students Employed Period of appointment Start End Nov 1989 Jul 2005 Jun 2002 Jul 1976 May 2007 May 2007 Jan 1998 Jan 2006 Jan 2004 Jan 2006 Fte * 1.0 1.0 1.0 0.5 1.0 0.2 Coll. J. Nolles Jan 2000 Jan 2006 0.8 ANU Ir. H.H. van Vugt Feb 2000 Nov 2004 1.0 Ir. E. Rijntjes Sep 2002 1.0 Guest S. Zeinoaldini Oct 2001 Jul 2005 1.0 Sandwich M. Gas Oct 2001 Jan 2006 0.5 ANU * fte regards the total appointment; tenured staff has approximately 40% available for research Table 2.2 Research input in fte by staff, postdocs and PhD students Average 19992003 Tenured staff 1.0 1.0 0.5 1.2 Postdocs and other non-tenured staff 0.0 0.0 0.0 0.4 AIO/OIOs 1.2 0.6 0.4 3.2 Other PhD students * 1.2 0.8 0.0 0.7 Total 3.4 2.4 0.9 5.5 * research time of external and sandwich PhD students is counted only when spent in Wageningen 2004 2005 2006 156 WIAS Midterm Review 2007 Human and Animal Physiology Developments in funding since the previous peer review, ambitions for the future Due to the further decrease in size compared to the previous peer review, the remaining staff members have been forced to increase their teaching load. Besides teaching, the focus has been on publishing papers in peer reviewed journals, therefore, no attempts have been undertaken to submit grants for external funding. With the appointment of another assistant professor and a new full professor in the near future, we expect to submit grants for externally funded projects by the end of 2008. Furthermore, since the chair group has moved to the Zodiac building several collaborations have been initiated with other groups within the Department that may lead to collaborative externally funded projects. Table 2.3 Research funding in fte by staff, postdocs and PhD students 2004 University funded NWO funded Contract funded Total 2.2 0.0 1.2 3.4 2005 1.6 0.0 0.8 2.4 2006 0.9 0.0 0.0 0.9 Average 1999-2003 2.8 2.3 0.5 5.5 3 Overview of the results Despite the decrease in staff, the output of the group has increased compared to previous review period. The annual number of publications in refereed journals has doubled and the average annual number of PhD theses is 40% higher compared to the period 1999-2003. Table 3.1 Publication output 2004 PhD theses Academic publications in refereed journals in other journals book chapters monographs and edited books proceedings (full papers only) scientific reports total academic publications Professional publications and products Publications for the general public 2 10 0 0 0 0 4 15 1 0 2005 1 5 0 0 0 0 0 5 0 0 2006 2 12 0 0 0 0 0 12 1 0 Average 1999-2003 1.2 4.4 0.2 0.0 0.0 0.4 0.0 5.0 0.2 0.0 It is expected that productivity of the Group will continue to increase in the next few years. A point of concern is the low number of PhD students who are necessary to maintain the productivity of the Group. Table 3.2 Number of publications per fte research input Per fte tenured staff Refereed journals Academic publications Per fte total research input Refereed journals Academic publications 2004 10.0 15.0 3.0 4.5 2005 5.0 5.0 2.1 2.1 2006 24.0 24.0 13.3 13.3 Average 1999-2003 3.7 4.2 0.8 0.9 157 WIAS Midterm Review 2007 Human and Animal Physiology 4 Analysis, perspectives and expectations of the Chair group Strengths • The successful development of an animal model for the investigation of hypothyroidism on gonadal development, initiation of puberty and metabolic function contributes significantly to the research output of the group and has contributed to the initiation of new collaboration within the Department and elsewhere. In co-operation with the HAN a project has been initiated investigating the energetic and metabolic consequences of exercise under high altitude conditions in relation to food intake. Well-equipped research facilities for histological, immunohistochemical and quantitative morphometric analysis; excellent expertise and facilities for biochemical analyses such as IRMS and RIA. New facilities have recently become available to investigate energy expenditure under hypoxic conditions (high altitude simulator “Go2Altitude”) Financial performance by the group has improved considerably Limited size of the group (staff and PhD students) and the heavy teaching load of the staff Lack of external research funding Due to absence of a chair in the past 2 years research strategy and future vision have not been developed properly Difficulty in maintaining a sufficient ‘critical mass’ Increasing need for knowledge on the effects of nutrition (and malnutrition) in relation to metabolic rate, to reduce the incidence of obesity and its consequences to human and animal health With the move of the group to the Zodiac building and the attraction of a new assistant professor, collaborations with other groups within the Department and the Human Nutrition group have been initiated. Possibilities for external funding by the European Union The appointment of a new Chair Excellent animal research facilities and hormone analysis capabilities Difficulties in funding fundamental research in the Netherlands Increasing teaching load due to the rise in BSc and MSc student numbers Increase in external funding is essential Increase in the critical mass of the Group has a high priority Strategic collaboration with the Human Nutrition group of Wageningen University, in which HAP can offer substantial fundamental input, needs to be expanded Further development of expertise on molecular biology and collaborations with groups focussing on epigenetics and nutrigenomics Increase size of staff which will lead to reduction of teaching load for individual staff members and will offer them more time to write grants and to maintain their productivity • • Weaknesses • • • • • • • • • • • • • • • • • Opportunities Threats Analysis Goals Strategy 158 WIAS Midterm Review 2007 Human and Animal Physiology Annex List of publications 2004-2006 PhD theses Bolhuis, J.E. (2004) Personalities in pigs: Individual characteristics and coping with environmental challenges WUR Wageningen UR. Promotor(en): Wiegant, Prof Dr V.M., co-promotor(en): Schouten, W.G.P.; Schrama, Dr ir J.W.. - [S.l.] : [s.n.], - p. 176. Gas, M. (2006) Consequences of different strategies of free amino acid supplementation to dietary proteins for physiological utillization WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Schreurs, Dr V.V.A.M.; Bujko, Dr. J.. - s.n. : s.n., - p. 150. Nolles, J.A. (2006) Postprandial fate of amino acids: adaptation to molecular forms WUR Wageningen UR. Promotor(en): Verstegen, Prof dr ir M.W.A., co-promotor(en): Schreurs, Dr V.V.A.M.. S.l. : s.n., - p. 120. Vugt, H.H. van (2004) Growth hormone and reproduction in the female rat: a central role for somatostatin Wageningen Universiteit. Promotor(en): Heide, Prof dr D. van der, co-promotor(en): Beek, Dr E.M. van der. s.l. : s.n., - p. 142. Zeinoaldini, S. (2005) Hormonal regulation of puberty onset in female rats: is leptin a missing link? WUR Wageningen UR. Promotor(en): Heide, Prof dr D. van der, co-promotor(en): Heijning, Dr ir H.J.M. van de. - Wageningen : Wageningen University, - p. 176. Scientific articles in refereed journals Beek, E.M. van der; Wiegant, V.M.; Schouten, W.G.P.; Eerdenburg, F.J.C.M. van; Loijens, L.W.S.; Plas, C.; Benning, M.A.; Vries, H. de; Kloet, E.R. de; Lucassen, P.J. (2004) Neuronal Number, Volume, and Apoptosis of the Left Dentate Gyrus of Chronically Stressed Pigs Correlate Negatively With Basal Saliva Cortisol Levels Hippocampus 14 (6). - p. 688 - 700. Bolhuis, J.E.; Schouten, W.G.P.; Leeuw, J.A. de; Schrama, J.W.; Wiegant, V.M. (2004) Individual coping characteristics, rearing conditions and behavioural flexibility in pigs Behavioural Brain Research 152 . - p. 351 - 360. Bolhuis, J.E.; Schouten, W.G.P.; Schrama, J.W.; Wiegant, V.M. (2005) Individual coping characteristics, aggressiveness and fighting strategies in pigs Animal Behaviour 69 (5). - p. 1085 - 1091. Bolhuis, J.E.; Schouten, W.G.P.; Schrama, J.W.; Wiegant, V.M. (2005) Behavioural development of pigs with different coping characteristics in barren and substrate-enriched housing conditions Applied Animal Behaviour Science 93 (3-4). - p. 213 - 228. Bolhuis, J.E.; Schouten, W.G.P.; Schrama, J.W.; Wiegant, V.M. (2006) Effects of rearing and housing environment on behaviour and performance of pigs with different coping characteristics Applied Animal Behaviour Science 101 (1-2). - p. 68 - 85. 159 WIAS Midterm Review 2007 Human and Animal Physiology Bujko, J.; Kasprzak, J.; Houlshof, P.; Schreurs, V.V.A.M. (2006) Comparison of different methods of body fat measurement in non-obese young adults Polish Journal of Food and Nutrition Sciences 15/56 (S12). - p. 139 - 144. Duijsings, D.; Houweling, M; Vaandrager, A.B.; Mol, J.A.; Teerds, K.J. (2004) Hexadecylphosphocholine causes rapid cell death in canine mammary tumour cells European Journal of Pharmacology 502 (3). - p. 185 - 193. Geverink, N.A.; Parmentier, H.K.; Vries Reilingh, G. de; Schouten, W.G.P.; Gort, G.; Wiegant, V.M. (2004) Effect of response to backtest and housing condition on cell-mediated and humoral immunity in adult pigs Physiology and Behavior 80 (4). - p. 541 - 546. Geverink, N.A.; Heetkamp, M.J.W.; Schouten, W.G.P.; Wiegant, V.M.; Schrama, J.W. (2004) Backtest type and housing condition of pigs influence energy metabolism Journal of Animal Science 82 (4). - p. 1227 - 1233. Lompo, Z.; Heide, D. van der; Beek, E.M. van der; Swarts, J.J.M.; Mattheij, J.A.M.; Sawadogo, L. (2004) Effect of aqueous extract of Acacia nilotica ssp adansonii on milk production and prolactin release in the rat Journal of Endocrinology 182 (2). - p. 257 - 266. Lucassen, P.J.; Heine, V.M.; Muller, M.B.; Beek, E.M. van der; Wiegant, V.M.; Kloet, E.R. de; Joels, M.; Fuchs, E.; Swaab, D.F.; Czeh, B. (2006) Stress, depression and hippocampal apoptosis CNS & Neurological Disorders 5 (5). - p. 531 - 546. Meerts, I.A.T.M.; Hoving, S.; Berg, J.H.J. van den; Weijers, B.M.; Swarts, J.J.M.; Beek, E.M. van der; Bergman, A.; Koeman, J.H. (2005) Effects of In Utero Exposure to 4-hydroxy-2,3,3',4',5-pentachlorobiphenyl (4-OH-CB107) on Developmental Landmarks, Steroid Hormone Levels, and Female Estrous Cyclicity in Rats In: Effects of in Utero Exposure to 4-hydroxy-2,3,3',4',5-pentachlorobiphenyl (40OH-CB107) on Developmental Landmarks, Steroid Hormone Levels, and Female Estrous Cyclicity in Rats. - Toxicological Sciences 82 (1). - p. 259 - 267. Nolles, J.A.; Straten, E.M.E. van; Bremer, B.I.; Koopmanschap, R.E.; Verstegen, M.W.A.; Schreurs, V.V.A.M. (2006) Dietary amino acids fed in free form and as protein components do not differently affects postprandial plasma insulin, glucagon, growth hormone and corticosterone responses in rats Journal of Animal Physiology and Animal Nutrition 90 (7-8). - p. 289 - 299. Pomar, F.J.; Roelen, B.A.J.; Slot, K.A.; Tol, H.T.A. van; Colenbrander, B.; Teerds, K.J. (2004) Role of Fas-Mediated Apoptosis and Follicle-Stimulating Hormone on the Developmental Capacity of Bovine Cumulus Oocyte Complexes in Vitro Biology of Reproduction 71 (3). - p. 790 - 796. Rubio Pomar, F.J.; Ducro-Steverink, D.W.B.; Hazeleger, W.; Teerds, K.J.; Colenbrander, B.; Bevers, M.M. (2004) Development, DNA fragmentation and cell death in porcine embryos afer 24 h storage under different conditions Theriogenology 61 (1). - p. 147 - 158. Rubio Pomar, F.J.; Teerds, K.J.; Kidson, A.; Colenbrander, B.; Tharasanit, T.; Aguilar, B.; Roelen, B.A.J. (2005) Differences in the incidence of apoptosis between in vivo and in vitro produced blastocysts of farm animal species: a comparative study Theriogenology 63 (8). - p. 2254 - 2268. Schroder-van der Elst, J.P.; Heide, D. van der; Romijn, J.A.; Smit, J.W.A. (2004) Differential effects of natural flavonoids on growth and iodide content in a human NA+/I_symporter-transfecred follicular thyroid carcinoma cell line European Journal of Endocrinology 150 (4). - p. 557 - 564. 160 WIAS Midterm Review 2007 Human and Animal Physiology Slot, K.A.; Voorendt, M.; Boer-Brouwer, M. de; Vugt, H.H. van; Teerds, K.J. (2006) Estrous cycle dependent changes in expression and distribution of Fas, Fas ligand, Bcl-2, Bax, and pro- and active caspase-3 in the rat ovary Journal of Endocrinology 188 (2). - p. 179 - 192. Slot, K.A.; Boer-Brouwer, M. de; Houweling, M; Vaandrager, A.B.; Dorrington, J.H.; Teerds, K.J. (2006) Luteinizing hormone inhibits Fas-induced apoptosis in ovarian surface epithelial cell lines Journal of Endocrinology 188 (3). - p. 227 - 239. Slot, K.A.; Boer-Brouwer, M. de; Voorendt, M.; Sie-Go, D.M.D.S.; Ghahremani, M.; Dorrington, J.H.; Teerds, K.J. (2006) Irregularly shaped inclusion cysts display increased expression of Ki67, Fas, Fas ligand, and procaspase-3 but relatively little active caspase-3 International Journal of Gynecological Cancer 16 (1). - p. 231 - 239. Slot, K.A.; Kastelijn, J.; Bachelot, A.; Kelly, P.A.; Binart, N.; Teerds, K.J. (2006) Reduced recruitment and survival of primordial and growing follicles in GH receptor-deficient mice Reproduction 131 (3). - p. 525 - 532. Turkstra, J.A.; Meer, F.J.U.M.; Knaap, J.; Rottier, P.J.M.; Teerds, K.J.; Colenbrander, B.; Meloen, R.H. (2005) Effects of GnRH immunization in sexually mature pony stallions Animal Reproduction Science 86 (3-4). - p. 247 - 259. Vugt, H.H. van; Swarts, J.J.M.; Heijning, H.J.M. van de; Beek, E.M. van der (2004) Centrally Applied Somatostatin Inhibits the Estrogen-Induced Luteinizing Hormone Surge via Hypothalamic Gonadotropin-Releasing Hormone Cell Activation in Female Rats Biology of Reproduction 71 (3). - p. 813 - 819. Zeinoaldini, S.; Swarts, J.J.M.; Heijning, B.J.M. van de (2006) Effects of central infusion and immunoneutralization of growth hormone on the timing of puberty and plasma leptin levels in the female rat Regulatory Peptides 134 (2-3). - p. 158 - 163. Zeinoaldini, S.; Swarts, J.J.M.; Heijning, B.J.M. van de (2006) Central Application of IGF-1 Postpones Time of Vaginal Opening in Normally Fed, but Not in Food-Restricted Rats Hormone Research 66 (4). - p. 169 - 174. Zeinoaldini, S.; Swarts, J.J.M.; Heijning, B.J.M. van de (2006) Chronic leptin infusion advances, and immunoneutralization of leptin postpones puberty onset in normally fed and feed restricted female rats Peptides 27 (7). - p. 1652 - 1658. Zeinoaldini, S.; Swarts, J.J.M.; Heijning, B.J.M. van de (2006) A Signaling Role for Leptin in Puberty Onset in Female Rats? Journal of Pediatric Endocrinology & Metabolism 19 (10). - p. 1239 - 1247. Proceedings (Full papers only) Buijko, J.; Myszkowska-Ryciak, J.; Koopmanschap, R.E.; Kuijf, B; Zierikzee, A.M.; Schreurs, V.V.A.M. (2004) The influence of feeding frequency and protein source in protein status and immune response In: Polish Journal of Food and Nutrition Sciences. - Polish Journal of Food and Nutrition Sciences 13/54 (SI 2). - p. 15 - 18. 161 WIAS Midterm Review 2007 Human and Animal Physiology Buijko, J.; Schreurs, V.V.A.M. (2004) Indirect Calorimetry and [13C] - Breath tests: complementary Methods for Study Energy Expenditure and Substrate Oxidation In: Physiological Determinants of Progress in Diet Therapy: International Scientific Conference, Warsaw, 4-5 November 2004. Gas, M.; Buijko, J.; Krupa, K.; Koopmanschap, R.E.; Schreurs, V.V.A.M. (2004) Impact of Lys and/or met Deficient Protein on body Weight Gain and Cascass Composition of Growing Rats In: Physiological Determinants of Progress in Diet Therapy, Warszawa 5-6 XI 2004. Myszkowska-Ryciak, J.; Buijko, J.; Schreurs, V.V.A.M.; Koopmanschap, R.E. (2004) The Influence of a shift in Form of Meal Protein on Postprandial Oxidative Losses of Leucine and Methionine. A Model Study with rats In: Physiological Determinants of Progress in Diet Therapy, Warszawa 5-6 XI 2004. Professional publications and products (incl. patents) Hendriks, W.H.; Teerds, K.J. (2006) Wat is goede voeding voor een kat Pers info 26 (4). - p. 16 - 17. Schreurs, V.V.A.M.; Kwakkel, R.P.; Verstegen, M.W.A. (2004) Verschil in metabole benutbaarheid van vrije en eiwitgebonden aminozuren Lsg Diervoeding, - p. 67. 162 WIAS Midterm Review 2007 Quantiative Veterinary Epidemiology Quantitative Veterinary Epidemiology (QVE) 1 Reflection on the previous assessment The department of Animal Sciences has requested the university to change the chair into a full chair in order to increase the capacity of the group as recommended by the previous assessment. However, the university in 2006 has declined to increase the capacity of the chair group. We now try to develop the group further on our own strength by using the financial possibilities that result from the high productivity of the group both in research and in education. The Animal Sciences department has supported QVE in doing that by allowing employment of the chairholder as associate professor (0,5 fte) in his own group. Financial situation of the group is still favourable and will be used to employ additional (postdoc) research staff in the coming time. We have retained the situation where the senior staff member handles finances and administration of QVE and the chair concentrates on scientific development and new cooperation. The number of publications, the number of PhD graduations and also the number of citations (see below) has more than made true the expectations of the very positive review in 2004. The group has also been successful in acquiring new PhD students which stresses the need for additional postdoc capacity. . The intention in our previous plans to start own experimental work with aquatic organism has been realised together with AFI (3 PhDs) and this line will be developed further. New PhD student funds are found by cooperation with CRO in Lelystad on developing transmission models (1 PhD) and with the Faculty of Veterinary Medicine in Utrecht on Avian influenza (4 PhD) and on MRSA with RIVM (institute for public health & the environment) and the animal health service (1 PhD). The cooperation with Ireland led to formulating a new PhD project to be financed by the Irish government. New cooperation is also found within Wageningen University with the several groups within biology and plant science: entomology, resource ecology etc. on the subject of ecology of infectious diseases (role of vectors and wild life reservoirs). 163 WIAS Midterm Review 2007 Quantiative Veterinary Epidemiology 2 Research input Due to cooperation and previous professorial appointment of chairholder at Utrecht University there is a number of PhD students that graduated in Utrecht or will still graduate in Utrecht (not incorporated in the FTE in the Tables below). These students are not participating in WIAS. New cooperative projects with UU and with Ireland will be done under the condition that enrolment in the WIAS educational programme is obligatory for PhDs for which QVE is the first promoter (applies to Francisca Velkers (UU), 1 new student appointed in 2007 (Els Broens), and 2 vacancies for AI research to be filled in 2007). Period of appointment Fte * Start End Full professors Mart C.M. de Jong Jan 2004 0.45 Associate professors Klaas Frankena Jan 1987 1.0 Mart C.M. de Jong Sep 2006 0.45 Assistant professor Lisette Graat 2001 0.7 PhD students Joan Somers (UU 2e) 2000 2004 Geenen, P.L. May 1999 Oct 2005 Monti, G.E. May 1999 Jun 2005 Romero Zúñiga, J.J. Jan 1998 Oct 2005 Schouten, J.M. Jan 1998 Oct 2005 Phaedra Eblé (UU 2e) 1998 2006 Liesbeth Mollema Jan 2000 Dec 2006 Ellen van Eerden (2e) Sep 2002 Feb 2007 Karin Orsel (UU) 2001 2007 Francisca Velkers Nov 2003 0.6 Jeanet van der Goot (UU) 2002 Martijn Bouwknegt Nov 2003 Paul White (no TSP) Feb 2004 Marion Bos (UU 2e) 2004 Nguyen Huu Trung Nov 2005 Dec 2006 Yang Zhao Aug 2006 * fte regards the total appointment; tenured staff has approximately 40% available for research Table 2.2 Research input in fte by staff, postdocs and PhD students Average 1999-2003 Tenured staff 0.9 0.9 0.9 0.7 Postdocs and other non-tenured staff 0.0 0.0 0.0 0.0 AIO/OIOs 0.8 0.8 0.8 0.8 Other PhD students * 0.3 0.4 0.9 0.8 Total 1.9 2.0 2.5 2.3 * research time of external and sandwich PhD students is counted only when spent in Wageningen 2004 2005 2006 Table 2.3 Research funding in fte by staff, postdocs and PhD students 2004 University funded NWO funded Contract funded Total 1.1 0.0 0.8 1.9 2005 1.2 0.0 0.8 2.0 2006 1.6 0.0 1.0 2.5 Average 1999-2003 1.1 0.0 1.2 2.3 Table 2.1 Research staff Name and present title 164 WIAS Midterm Review 2007 Quantiative Veterinary Epidemiology 3 Overview of the results Table 3.1 Publication output Programme results: outcome numbers PhD theses Academic publications in refereed journals in other journals refereed book chapters non-refereed book chapters Monographs edited books proceedings (full papers only) scientific reports Total academic publications Professional publications and products (incl. IP) Publications for the general public 2004 1 11 0 0 0 0 0 1 1 13 0 0 2005 4 21 0 0 0 0 0 1 2 24 1 0 2006 1 6 0 0 0 0 0 1 1 8 2 0 Average 1999-2003 0.2 4.2 0.6 1.2 0.0 0.2 0.0 4.4 0.0 10.6 0.4 0.0 The number of publications has increased since the previous assessment. Also, the number of citations for our (QVE) publications increased. In the previous assessment period (98-03) it increased from approx 80 – 125 per year whereas for the last 3 years (04-06) it is around 200250 per year. Table 3.2 Number of publications per fte research input Per fte tenured staff Refereed journals Academic publications Per fte total research input Refereed journals Academic publications 5.9 7.0 10.8 12.3 2.4 3.2 1.8 4.6 2004 12.9 15.3 2005 24.7 28.3 2006 6.7 8.9 Average 1999-2003 6.0 15.1 165 WIAS Midterm Review 2007 Quantiative Veterinary Epidemiology 4 Analysis, perspectives and expectations of the Chair group Strengths • • • • Weaknesses • • • • • • • Cooperation with ID-Lelystad (also because of possibilities for experimental research), Human health institute (RIVM) and Utrecht University Many highly cited publications Active in advisory boards for different governments (NL, IRL, GB, & EC) and NGO’s (PVE, GD). Participant in research projects on all the major animal disease problems in Netherlands. Too little staff to follow up new initiatives for which we are asked (We have financial possibilities to expand staff which we should use more) High work load because the basic capacity provided by university is only 50%.(In the new output financing system introduced next year this difference becomes less important) Animal diseases and infectious diseases in general are more and more recognised as being important for society. The research institutes responsible for statutory animal diseases and zoonoses are part of WUR Possibilities to build up own experimental research together with AFI and Virology in Wageningen WU is a strong university with respect to ecological research and thus we can develop prime research on vector borne diseases (entomology), wild life diseases (resource ecology), and aquatic diseases (AFI). Wageningen University does not have clinical research groups neither for animal diseases nor for human diseases. (What is needed is clear definition for what aspects WUR can be strong in infectious disease research: see opportunities). QVE should capitalise on the new financial structure: employ more staff and develop own experimental possibilities. QVE should play more its role in defining the strategic position of WUR with respect to infectious diseases (plant, animal and humans). Develop further the own research line with respect to the population biology of infectious diseases: in system terms link the individual level work with the population level and control strategies. Own experimental facilities and own research programme on aquatic animal diseases. Expand the QVE group with more postdoc staff both through external funds and own resources. There is now a sufficient number of new PhD students attracted (2007) and thus we will now focus on getting more postdocs and tenured staff. Experimental work with aquatic organisms will be developed together with AFI and virology. Experimental work in Lelystad will be continued and developed further (e.g. for MRSA). Opportunities Threats Analysis • • Goals • Strategy • • • 166 WIAS Midterm Review 2007 Quantiative Veterinary Epidemiology Annex: List of publications 2004-2006 PhD theses Geenen, P.L. (2005) F4+ Escherichia coli in piglets: effect of host characteristics on population dynamics WUR Wageningen UR. Promotor(en): Jong, Prof.dr.ir. M.C.M. de, co-promotor(en): Bouma, A.; Meulen, Dr J. van der. - Wageningen, The Netherlands : Wageningen University, - p. 117. Mollema, E. (2006) On the role of feral ruminants in the transmission of bovine herpesvirus 1 to domestic cattle WUR Wageningen UR. Promotor(en): Jong, Prof.dr.ir. M.C.M. de, co-promotor(en): Rijsewijk, Dr F.A.M.; Koene, Dr P.. Monti, G.E. (2005) Epidemiology, infection dynamics and effective control of Bovine Leukemia virus within dairy herds of Argentina: a quantitative approach WUR Wageningen UR. Promotor(en): Jong, Prof.dr.ir. M.C.M. de, co-promotor(en): Frankena, Dr ir K.. Wageningen : [s.n.], - p. 164. Romero Zúñiga, J.J. (2005) Appraisal of the Epidemiology of Neospora caninum Infection in Costa Rican Dairy Cattle WUR Wageningen UR. Promotor(en): Jong, Prof.dr.ir. M.C.M. de, co-promotor(en): Frankena, Dr ir K.; Pérez Gutiérrez, Prof.dr. E.. - [S.l.] : [s.n.], - p. 137. Schouten, J.M. (2005) Verocytotoxin producing E. Coli O157 on farms : prevalences, risk factors and transmission WUR Wageningen UR. Promotor(en): Jong, Prof.dr.ir. M.C.M. de, co-promotor(en): Graat, Dr ir E.A.M.; Giessen, A.W. van de. - Wageningen, The Netherlands : Wageningen University, - p. 150. Somers, J.G.C.J. (2004) Claw disorders and disturbed locomotion in dairy cows: the effect of floor systems and implications for animal welfare Utrecht University, Faculty of Veterinary Medicine. Promotor(en): Noordhuizen-Stassen, Prof Dr E.N.; Metz, Prof.dr.ir. J.H.M., co-promotor(en): Frankena, Dr ir K.; Schouten, W.G.P.. - Enschede : Printpartners Ipskam, p. 143. Scientific articles in refereed journals Antonis, A.F.G.; Bouma, A.; Bree, J. de; Jong, M.C.M. de (2004) Comparison of the sensitivity of in vitro and in vivo tests for detection of the presence of a bovine viral diarrhoea virus type 1 strain Veterinary Microbiology 102 (3-4). - p. 131 - 140. Asseldonk, M.A.P.M. van; Roermund, H.J.W. van; Fischer, E.A.J.; Jong, M.C.M. de; Huirne, R.B.M. (2005) Stochastic efficiency analysis of bovine tuberculosis-surveillance programs in the Netherlands Preventive Veterinary Medicine 69 (1-2). - p. 39 - 52. Bosma, R.H.; Savelkoul, H.F.J.; Frankena, K.; Baars, T.; Laarakker, E. (2006) Dairy herd health, impedance on six acupuncture points and immune response factors in milk: A pilot study Livestock Science 99 (2-3). - p. 285 - 290. Bouma, A.; Dekker, A.; Jong, M.C.M. de (2004) No foot-and-mouth disease virus transmission between individually housed calves Veterinary Microbiology 98 (1). - p. 29 - 36. 167 WIAS Midterm Review 2007 Quantiative Veterinary Epidemiology Döpfer, D.; Geue, L.; Bree, J. de; Jong, M.C.M. de (2006) Dynamics of verotoxin-producing Escherichia coli isolated from German beef cattle between birth and slaughter Preventive Veterinary Medicine 73 (4). - p. 229 - 240. Eerden, E. van; Brand, H. van den; Parmentier, H.K.; Jong, M.C.M. de; Kemp, B. (2004) Phenotypic Selection for Residual Feed Intake and Its Effect on Humoral Immune Responses in Growing Layer Hens Poultry Science 83 (9). - p. 1602 - 1609. Eerden, E. van; Brand, H. van den; Vries Reilingh, G. de; Parmentier, H.K.; Jong, M.C.M. de; Kemp, B. (2004) Residual Feed Intake and its Effect on Salmonella enteritidis Infection in Growing Layer Hens Poultry Science 83 . - p. 1904 - 1910. Engel, B.; Bouma, A.; Stegeman, J.A.; Buist, W.; Elbers, A.; Kogut, J.; Döpfer, D.; Jong, M.C.M. de (2005) When can a veterinarian be expected to detect classical swine fever virus among breeding sows in a herd during an outbreak? Preventive Veterinary Medicine 67 (2-3). - p. 195 - 212. Engel, B.; Swildens, B.; Stegeman, J.A.; Buist, W.G.; Jong, M. de (2006) Estimation of Sensitivity and Specificity of Three Conditionally Dependent Diagnostic Tests in the Absence of a Gold Standard Journal of Agricultural, Biological, and Environmental Statistics 11 (4). - p. 360 - 380. Fischer, E.A.J.; Roermund, H.J.W. van; Hemerik, L.; Asseldonk, M.A.P.M. van; Jong, M.C.M. de (2005) Evaluation of surveillance strategies for bovine tuberculosis (Mycobacterium bovis) using an individual based epidemiological model Preventive Veterinary Medicine 67 (4). - p. 283 - 301. Geenen, P.L.; Meulen, J. van der; Bouma, A.; Jong, M.C.M. de (2004) Estimating transmission parameters of F4 + E. coli for F4-receptor-positive and -negative piglets: one-to-one transmission experiment Epidemiology and Infection 132 (6). - p. 1039 - 1048. Geenen, P.L.; Döpfer, D.; Meulen, J. van der; Jong, M.C.M. de (2005) Transmission of F4+ E. coli in groups of early weaned piglets Epidemiology and Infection 133 (3). - p. 459 - 468. Groot, J.A. de; Koch, G.; Jong, M.C.M. de; Boven, M. van (2005) Quantification of the effect of vaccination on transmission of avian influenza (H7N7) in chickens Proceedings of the National Academy of Sciences of the United States of America 120 (50). - p. 18141 - 18146. Hartman, E.; Frankena, K.; Oude Vrielink, H.H.E.; Nielen, M.; Metz, J.H.M.; Huirne, R.B.M. (2004) Risk factors associated with sick leave due to work-related injuries in Dutch farmers: an exploratory case-control study Safety Science 42 (9). - p. 807 - 823. Helps, C.R.; Lait, P.; Damhuis, A.; Björnehammar, U.; Bolta, D.; Brovida, C.; Chabanne, L.; Egberink, H.; Ferrand, G.; Fontbonne, A.; Pennisi, M.G.; Gruffydd-Jones, T.; Gunn-Moore, D.; Hartmann, K.; Lutz, H.; Malandain, E.; Möstl, K.; Stengel, C.; Harbour, D.A.; Graat, E.A.M. (2005) Factors associated with upper respiratory tract disease caused by feline herpesvirus, feline calicivirus, Chlamydophila felis and Bordetella bronchiseptica in cats: experience from 218 European catteries Veterinary Record 156 (21). - p. 669 - 673. Heres, L.; Urlings, B.A.P.; Wagenaar, J.A.; Jong, M.C.M. de (2004) Transmission of Salmonella between broiler chickens fed with fermented liquid feed Epidemiology and Infection 132 (1). - p. 107 - 116. 168 WIAS Midterm Review 2007 Quantiative Veterinary Epidemiology Holzhauer, M.; Middelesch, H.; Bartels, C.J.; Frankena, K.; Verhoeff, J.; Noordhuizen-Stassen, E.N.; Noordhuizen, J.P. (2005) Assessing the repeatability and reproducibility of the Leg Score: a Dutch Claw Health Scoring System for dairy cattle Tijdschrift voor Diergeneeskunde 130 (14-15). - p. 440 - 443. Holzhauer, M.; Hardenberg, C.; Bartels, C.J.M.; Frankena, K. (2006) Herd- and Cow-Level Prevalence of Digital Dermatitis in The Netherlands and Associated Risk Factors Journal of Dairy Science 89 (2). - p. 580 - 588. Hooijer, G.A.; Oijen, M.A.A.J. van; Frankena, K.; Noordhuizen, J.P.T.M. (2005) Influence of Negative Energy Balans on the Reproductive Performance after Treatment of Cystic Ovarian Disease with Gonadotrophin-releasing Hormone in Dairy Cows Journal of Veterinary Medicine Series A-Physiology Pathology Clinical Medic 52 (6). - p. 298 - 304. Klinkenberg, D.; Nielen, M.; Mourits, M.C.M.; Jong, M.C.M. de (2005) The effectiveness of classical swine fever surveillance programmes in The Netherlands Preventive Veterinary Medicine 67 (1). - p. 19 - 37. Koeijer, A. de; Heesterbeek, H.; Schreuder, B.E.C.; Oberthur, R.; Wilesmith, J.; Jong, M.C.M. de (2004) Quantifying BSE control by calculating the basic reproduction ratio R0 for the infection among cattle Journal of Mathematical Biology 48 (1). - p. 1 - 22. Mollema, E.; Rijsewijk, F.A.M.; Nodelijk, H.A.; Jong, M.C.M. de (2005) Quantification of the transmission of bovine herpesvirus 1 among red deer (cervus elaphus) under experimental conditions Veterinary Microbiology 111 (1-2). - p. 25 - 34.Elsevier, - p. 25 - 34. Mollema, E.; Jong, M.C.M. de; Boven, M. van (2005) Prolonged persistence of bovine herpesvirus in small cattle herds: a model-based analysis Epidemiology and Infection 133 (1). - p. 137 - 148. Mollema, L.; Koene, P.; Jong, M.C.M. de (2006) Quantification of the contact structure in a feral cattle population and its hypothetical effect on the transmission of bovine herpesvirus 1 Preventive Veterinary Medicine 77 (3-4). - p. 161 - 179. Monti, G.E.; Frankena, K.; Engel, B.; Buist, W.; Tarabla, H.D.; Jong, M.C.M. de (2005) Evaluation of a new antibody-based enzyme-linked immunosorbent assay for the detection of bovine leukemia virus infection in dairy cattle Journal of Veterinary Diagnostic Investigation 17 (5). - p. 451 - 457. Monti, G.; Schrijver, R.; Beier, D. (2005) Genetic diversity and spread of Bovine leukemia virus isolates in Argentine dairy cattle Archives of Virology 150 (3). - p. 443 - 458. Monti, G.E.; Frankena, K. (2005) Survival analysis on aggregate data to assess time to sero-conversion after experimental infection with Bovine Leukemia virus Preventive Veterinary Medicine 68 (2-4). - p. 241 - 262. Orsel, K.; Dekker, A.; Bouma, A.; Stegeman, J.A.; Jong, M.C.M. de (2005) Vaccination against foot and mouth disease reduces virus transmission in groups of calves Vaccine 23 (41). - p. 4887 - 4894. Roelofs, J.B.; Graat, E.A.M.; Mullaart, E.; Soede, N.M.; Voskamp-Harkema, W.; Kemp, B. (2006) Effects of insemination-ovulation interval on fertilization rates and embryo characteristics in dairy cattle Theriogenology 66 (9). - p. 2173 - 2181. 169 WIAS Midterm Review 2007 Quantiative Veterinary Epidemiology Romero, J.J.; Perez, E.; Frankena, K. (2004) Effect of a killed whole Neospora caninum tachyzoite vaccine on the crube abortion rate of Costa Rican dairy cows under field conditions Veterinary Parasitology 123 (3-4). - p. 149 - 159. Romero, J.J.; Breda, S. van; Vargas, B.; Dolz, G.; Frankena, K. (2005) Effect of neosporosis on productive and reproductive performance of dairy cattle in Costa Rica Theriogenology 64 (9). - p. 1928 - 1939. Schouten, J.M.; Bouwknegt, M.; Giessen, A.W. van de; Frankena, K.; Jong, M.C.M. de; Graat, E.A.M. (2004) Prevalence estimation and risk factors for Escherichia coli O157 on Dutch dairy farms Preventive Veterinary Medicine 64 (1). - p. 49 - 61. Schouten, J.M.; Giessen, A.W. van de; Frankena, K.; Jong, M.C.M. de; Graat, E.A.M. (2005) Escherichia coli O157 prevalence in Dutch poultry, pig finishing and veal herds and risk factors in Dutch veal herds Preventive Veterinary Medicine 70 (1-2). - p. 1 - 15. Schouten, J.M.; Graat, E.A.M.; Frankena, K.; Giessen, A.W. van de; Zwaluw, W.K. van der; Jong, M.C.M. de (2005) A longitudinal study of Escherichia coli O157 in cattle of a Dutch dairy farm and in the farm environment Veterinary Microbiology 107 (3-4). - p. 193 - 204. Somers, J.G.C.J.; Schouten, W.G.P.; Frankena, K.; Noordhuizen-Stassen, E.N.; Metz, J.H.M. (2005) Development of Claw Traits and Claw Lesions in Dairy Cows kept on different floor systems Journal of Dairy Science 88 . - p. 110 - 120. Somers, J.G.C.J.; Frankena, K.; Noordhuizen-Stassen, E.N.; Metz, J.H.M. (2005) Risk factors for digital dermatitis in dairy cows kept in cubicle houses in The Netherlands Preventive Veterinary Medicine 71 (1-2). - p. 11 - 21. Somers, J.G.C.J.; Frankena, K.; Noordhuizen-Stassen, E.N.; Metz, J.H.M. (2005) Risk factors for interdigital dermatitis and heel erosion in dairy cows kept in cubicle houses in The Netherlands Preventive Veterinary Medicine 71 (1-2). - p. 23 - 34. Vonk Noordegraaf, A.; Labrovic, A.; Frankena, K.; Pfeiffer, D.U.; Nielen, M. (2004) Simulated hazards of loosing infection-free status in a Dutch BHV1 model Preventive Veterinary Medicine 62 (1). - p. 51 - 58. Proceedings (Full papers only) Borg, J.A.M. van der; Graat, E.A.M. (2006) Pilot study to identify risk factors for coprophagic behaviour in dogs In: Proceedings of the VDWE International Congress on Companion Animal Behaviour and Welfare. Klinkenberg, D.; Nielen, M.; Mourits, M.C.M.; Jong, M.C.M. de (2004) An evaluation of the Dutch classical swine fever surveillance programme In: Proceedings of the Society for Veterinary Epidemiology and Preventive Medicine.. Roermund, H.J.W. van; Jong, M.C.M. de (2005) Horizontal transmission experiment of paratuberculosis In: Proceedings 8th International Colloquium on Paratuberculosis, Copenhagen, Denmark,14-18 August 2005. - 170 WIAS Midterm Review 2007 Quantiative Veterinary Epidemiology Scientific reports Asseldonk, M.A.P.M. van; Jong, M.C.M. de; Vlieger, J.J. de; Huirne, R.B.M. (2005) Prevention and control of Foot-and-Mouth disease, classical swine fever and Avian influenza in the European Union: An integrated analysis of epidemiological, economic and social-ethical aspects Wageningen : Consortium for Veterinary Epidemiology and Economics (cVEE), - p. 1411. Knegsel, A.T.M. van; Brand, H. van den; Graat, E.A.M.; Dijkstra, J.; Jorritsma, R.; Decuypere, E.; Tamminga, S.; Kemp, B. (2006) Effect van energiesoort in het rantsoen en de energiebalans op plasma metabolieten en metabole hormonen in melkvee in de vroege lactatie Wageningen : Lsg Adaptatiefysiologie, Lsg Diervoeding, Schothorst, - p. 26. Roermund, H.J.W. van; Koeijer, A.A. de; Velthuis, A.G.J.; Weber, M.F.; Saatkamp, H.W.; Jong, M.C.M. de (2004) Quality assurance program for paratuberculosis: development of a new surveillance and control program for paratuberculosis, based on two farm states (green and red) representing the bulk milk quality Wageningen Universiteit, (Projects 2041 836 000 and 2041 837 000 ) - p. 56. Saatkamp, H.W.; Graat, E.A.M.; Mourits, M.C.M.; Jong, M.C.M. de (2005) Bewaking Leptospirose Hardjo op rundveebedrijven in Nederland Wageningen : Wageningen Universiteit, leerstoelgroep Bedrijfseconomie, Professional publications and products (incl. patents) Bierma, M.P.R.; Frankena, K.; Hogeveen, H.; Metz, J.H.M.; Stassen, E.N. (2006) Beslissingsondersteunende studie voor de aanpak van kreupelheid en klauwaandoeningen op melkveebedrijven Wageningen : Wageningen Universiteit, - p. 102. Koeijer, A.A. de; Klinkenberg, D.; Saatkamp, H.W.; Jong, M.C.M. de (2005) Bestrijdingsscenario's voor de ziekte van Aujeszky : epidemiologische en economische aspecten van de bestrijding zonder routinevaccinatie Lelystad : Animal Sciences Group WUR, - p. 62. Roermund, H.J.W. van; Stegeman, J.A.; Jong, M.C.M. de (2006) Binnen-bedrijf transmissie van paratuberculose Lelystad : ID-Lelystad, - p. 14. 171 WIAS Midterm Review 2007 Appendix Appendix List of Abbreviations AAS ABG ADP A&F AFI AIO ANU APS ASG BEC CBI CERES DGIS DLO EAAP ETH EU FAO FTE HAP HMI ID-Lelystad Imares INRA KNAW RUN LNV MGS NUFFIC NWO NWO-ALW NWO-STW NWO-WOTRO OIO PE&RC PRI QVE TNO VLAG UU VSNU Wageningen UR WU WIAS WIMEK Animals and Society Group Animal Breeding and Genetics Group Adaptation Physiology Group Agrotechnology and Food Innovations (contract research institute of Wageningen UR) Aquaculture and Fisheries Group Research trainee (employed PhD student, ‘Assistent in Opleiding’) Animal Nutrition Group Animal Production Systems Group Animal Sciences Group (one of the five science groups of Wageningen UR) Business Economics Group Cell Biology and Immunology Group Graduate School ‘Centre for Resource Studies for Human Development’ Directorate General International Cooperation, Ministry of Foreign Affairs Contract research part of Wageningen UR European Association for Animal Production Ethology Group European Union Food and Agriculture Organisation of the United Nations Farm Technology Group Human and Animal Physiology Group Host-Microbe Interactomics Group Former ‘Institute for Animal Science and Health’ in Lelystad, now part of the ASG Institute for Marine Resources and Ecosystem Studies (contract research institute of Wageningen UR) Institut National de Recherche Agronomique, France Royal Netherlands Academy of Sciences Radboud University Nijmegen Ministry of Agriculture, Nature Management and Food Quality Mansholt Graduate School for Social Sciences, Wageningen Netherlands University Organisation for International Cooperation in Higher Education Netherlands Organisation for Scientific Research (Netherlands Research Council) Earth and Life Sciences Foundation Technology Foundation Netherlands Foundation for the Advancement of Tropical Research Research trainee funded by NWO (employed PhD student, ’Onderzoeker in Opleiding’) C.T. de Wit Graduate School for Production Ecology and Resource Conservation Plant Research International (contract research institute of Wageningen UR) Quantitative Veterinary Epidemiology Group Netherlands Organisation for Applied Natural Sciences Graduate School of Food Technology, Agrobiotechnology, Nutrition and Health Sciences University of Utrecht Association of Cooperating Universities in the Netherlands Wageningen University and Research centre Wageningen University Graduate School Wageningen Institute of Animal Sciences Wageningen Institute for Environment and Climate Research 172