Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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'Maisopbrengst pakweg 35 tot 40 procent lager'
Groten, Jos - \ 2018
'Zonder Mesurol vaker overzaaien'
Groten, Jos - \ 2018
'Onderlinge vertrouwensband moet sterk zijn bij samenwerking'
Vijn, Marcel - \ 2018
Sequence diversity of CV777 PEDV strains
Rasmussen, Thomas Bruun ; Boniotti, Maria Beatrice ; Papetti, Alice ; Grasland, Béatrice ; Frossard, Jean Pierre ; Dastjerdi, Akbar ; Hulst, M.M. ; Hanke, Dennis ; Pohlmann, Anne ; Blome, Sandra ; Poel, W.H.M. van der; Steinbach, Falko ; Blanchard, Yannick ; Lavazza, Antonio ; Bøtner, Anette ; Belsham, Graham J. - \ 2018
PRJEB20818 - ERP023004
Droge bossen van het Vecht- en Beneden-Reggegebied (Overijssel) : toestand en kansen voor herstel en beheer van de habitattypen Beuken-eikenbossen met hulst (H9120) en Oude eikenbossen (H9190)
Bijlsma, R.J. ; Waal, R.W. de; Hommel, P.W.F.M. - \ 2018
Wageningen : Wageningen Environmental Research (Wageningen Environmental Research rapport 2876) - 95
Full-length genome sequences of porcine epidemic diarrhoea virus strain CV777; use of NGS to analyse genomic and sub-genomic RNAs
Rasmussen, Thomas Bruun ; Boniotti, Maria Beatrice ; Papetti, Alice ; Grasland, Béatrice ; Frossard, Jean Pierre ; Dastjerdi, Akbar ; Hulst, Marcel ; Hanke, Dennis ; Pohlmann, Anne ; Blome, Sandra ; Poel, Wim H.M. Van Der; Steinbach, Falko ; Blanchard, Yannick ; Lavazza, Antonio ; Bøtner, Anette ; Belsham, Graham J. - \ 2018
PLoS One 13 (2018)3. - ISSN 1932-6203
Porcine epidemic diarrhoea virus, strain CV777, was initially characterized in 1978 as the causative agent of a disease first identified in the UK in 1971. This coronavirus has been widely distributed among laboratories and has been passaged both within pigs and in cell culture. To determine the variability between different stocks of the PEDV strain CV777, sequencing of the full-length genome (ca. 28kb) has been performed in 6 different laboratories, using different protocols. Not surprisingly, each of the different full genome sequences were distinct from each other and from the reference sequence (Accession number AF353511) but they are >99% identical. Unique and shared differences between sequences were identified. The coding region for the surface-exposed spike protein showed the highest proportion of variability including both point mutations and small deletions. The predicted expression of the ORF3 gene product was more dramatically affected in three different variants of this virus through either loss of the initiation codon or gain of a premature termination codon. The genome of one isolate had a substantially rearranged 5´-terminal sequence. This rearrangement was validated through the analysis of sub-genomic mRNAs from infected cells. It is clearly important to know the features of the specific sample of CV777 being used for experimental studies.
Digitale empowerment van de demos : Een onderzoek naar aansprekende e-democracy innovaties
Hulst, Merlijn van; Cuijpers, Colette ; Hendriks, Frank ; Metze, T.A.P. ; Leenes, Ronald ; Hoekzema, Danny - \ 2017
Den Haag : Ministerie van Buitenlandse Zaken - 86 p.
Discourse-Framing-Storytelling. How do they differ and relate?
Vries, J.R. de; Dewulf, A.R.P.J. ; Metze, T.A.P. ; Bommel, S. van; Hulst, Merlijn van; Ostaijen, Mark van - \ 2017
Verplichte weidegang Scandinavische boeren
Pol-van Dasselaar, Agnes van den - \ 2017

In Zweden, Finland en Noorwegen is het bij wet geregeld om koeien een bepaalde periode te weiden.

'In Flevoland is meer weidegang mogelijk'
Philipsen, Bert ; Pol-van Dasselaar, Agnes van den - \ 2017

'Wie melkveehouder wil blijven in Nederland zal, op welke manier dan ook, een bijdrage moeten leveren aan weidegang.' Dat stelt Bert Philipsen, onderzoeker bij Wageningen Livestock Research.

Ethnography and Organizational Processes : Studying processes of organizing ethnographically. Studying the Complexities of Everyday Life
Hulst, Merlijn van; Ybema, Sierk ; Yanow, D. - \ 2017
In: Sage Handbook of Process Organization Studies / Langley, Ann, Tsoukas, Haridimos, SAGE Publications - ISBN 9781446297018 - p. 223 - 236.
De demos digitaal bekrachtigd? Zes e-democracy cases uit binnen- en buitenland
Hulst, Merlijn van; Cuijpers, Colette ; Hendriks, Frank ; Metze, T.A.P. - \ 2017
Bestuurskunde 26 (2017)2. - ISSN 0927-3387 - p. 41 - 50.
E-democracy incorporates digital tools, the internet and social media to enhance democracy. There are many of these tools available to improve governmental responsiveness, transparency, and accountability, but also to support the inclusiveness, representativeness and influence of citizens’ participation. Examples are online petitions, apps for neighborhood watches, wikiplanning and social media monitoring. Web 3.0, which is more interactive and less location specific, enables governments to take a more personalized approach. It also allows for participation across administrative and geographical boundaries. In this symposium two contributions address the question of the influence of e-democracy on the democratization of governmental decision-making, information and service delivery, and of citizens’ participation
Biological processes induced by ZnO, Amoxicillin, and Rye in cultured Intestinal Porcine Epithelial Cells (IPEC-J2)
Hulst, M.M. ; Hoekman, A.J.W. ; Smits, M.A. - \ 2017
Sus scrofa - GSE94139 - PRJNA369066
The objective of this study is to investigate to what extent gene expression data of dietary interventions generated in IPEC-J2 in vitro model overlap with in vivo data. Gene expression was recorded in IPEC-J2 cells upon exposure to three different dietary interventions commonly used in livestock. In a further step, we compared the results with mucosal gene expression responses, as measured in animals exposed to the same compounds via the diet. As compounds we used zinc oxide, rye and the antibiotic amoxicillin. The GEO accession numbers of the in vivo datasets are provided in the paper "Enrichment of in vivo determined transcription data from dietary intervention studies with in vitro data provides improved insight into gene regulation mechanisms" (submitted to "Genes and Nutrition").
Enrichment of in vivo transcription data from dietary intervention studies with in vitro data provides improved insight into gene regulation mechanisms in the intestinal mucosa
Hulst, Marcel ; Jansman, Alfons ; Wijers, Ilonka ; Hoekman, Arjan ; Vastenhouw, Stéphanie ; Krimpen, Marinus Van; Smits, Mari ; Schokker, Dirkjan - \ 2017
Genes & Nutrition 12 (2017). - ISSN 1555-8932 - 18 p.

Background

Gene expression profiles of intestinal mucosa of chickens and pigs fed over long-term periods (days/weeks) with a diet rich in rye and a diet supplemented with zinc, respectively, or of chickens after a one-day amoxicillin treatment of chickens, were recorded recently. Such dietary interventions are frequently used to modulate animal performance or therapeutically for monogastric livestock. In this study, changes in gene expression induced by these three interventions in cultured “Intestinal Porcine Epithelial Cells” (IPEC-J2) recorded after a short-term period of 2 and 6 hours, were compared to the in vivo gene expression profiles in order to evaluate the capability of this in vitro bioassay in predicting in vivo responses.


Methods

Lists of response genes were analysed with bioinformatics programs to identify common biological pathways induced in vivo as well as in vitro. Furthermore, overlapping genes and pathways were evaluated for possible involvement in the biological processes induced in vivo by datamining and consulting literature.


Results

For all three interventions, only a limited number of identical genes and a few common biological processes/pathways were found to be affected by the respective interventions. However, several enterocyte-specific regulatory and secreted effector proteins that responded in vitro could be related to processes regulated in vivo, i.e. processes related to mineral absorption, (epithelial) cell adherence and tight junction formation for zinc, microtubule and cytoskeleton integrity for amoxicillin, and cell-cycle progression and mucus production for rye.


Conclusions

Short-term gene expression responses to dietary interventions as measured in the in vitro bioassay have a low predictability for long-term responses as measured in the intestinal mucosa in vivo. The short-term responses of a set regulatory and effector genes, as measured in this bioassay, however, provided additional insight into how specific processes in piglets and broilers may be modulated by “early” signalling molecules produced by enterocytes. The relevance of this set of regulatory/effector genes and cognate biological processes for zinc deficiency and supplementation, gluten allergy (rye), and amoxicillin administration in humans is discussed.
Supermarkets and culture clash: The epistemological role of metaphors in administrative practice
Yanow, D. - \ 2016
In: Qualitative Research in Political Science / Blatter, Joachim K., Haverland, Markus, Hulst, Merlijn, SAGE (SAGE Library of Political Science ) - p. 181 - 200.
Effects of digested onion extracts on intestinal gene expression using rat intestine slices
Wit, N.J.W. de; Hulst, M.M. ; Govers, C.C.F.M. ; Meulen, J. van der; Hoef, A.M.A. van; Stoopen, G.M. ; Hamers, A.R.M. ; Hoekman, A.J.W. ; Vos, C.H. de; Bovee, T.F.H. ; Smits, M.A. ; Mes, J.J. ; Hendriksen, P.J.M. - \ 2016
Rattus norvegicus - GSE84179 - PRJNA328225
Rat small intestine precision cut slices were exposed for 6 hours to in vitro digested yellow (YOd) and white onion extracts (WOd) that was followed by transcriptomics analysis. The digestion was performed to mimic the digestion that in vivo takes place in the stomach and small intestine. The transcriptomics response of the rat small intestine precision cut slices was compared to that of human Caco-2 cells and the pig in-situ small intestinal segment perfusion. The microarray data for the human Caco-2 cells (GSE83893) and the pig in-situ small intestinal segment perfusion (GSE83908) have been submitted separately from the current data on rat intestine. The goal was to obtain more insight into to which extent mode of actions depend on the experimental model. A main outcome was that each of the three models pointed to the same mode of action: induction of oxidative stress and particularly the Keap1-Nrf2 pathway.
Effects of digested onion extracts on intestinal gene expression: an interspecies comparison using different intestine models
Hulst, M.M. ; Meulen, J. van der; Hoekman, A.J.W. ; Smits, M.A. - \ 2016
Sus scrofa - GSE83908 - PRJNA327381
Applicability of in vitro (human Caco-2 cells) and ex vivo intestine models (rat precision cut intestine slices and the pig in-situ small intestinal segment perfusion (SISP) technique) to study the effect of food compounds. In vitro digested yellow (YOd) and white onion extracts (WOd) were used as model food compounds and transcriptomics was applied to obtain more insight into which extent mode of actions depend on the model.
We testen stalvloeren en toevoegmiddelen
Dooren, Hendrik van; Winkel, Albert - \ 2016
Mechanistic in-vitro study on spray dried plasma as alternative against weaning diarrhea
Hulst, M.M. ; Wit, A.A.C. de; Doremalen, A.M.H. van; Heres, L. ; Vuure, C. van - \ 2016
Effects of digested onion extracts on intestinal gene expression: an interspecies comparison using different intestine models
Wit, N.J.W. de; Hulst, M.M. ; Govers, C.C.F.M. ; Meulen, J. van der; Hoef, A.M.A. van; Stoopen, G.M. ; Hamers, A.R.M. ; Hoekman, A.J.W. ; Vos, C.H. de; Bovee, T.F.H. ; Smits, M.A. ; Mes, J.J. ; Hendriksen, P.J.M. - \ 2016
PLoS One 11 (2016)9. - ISSN 1932-6203 - 18 p.
Human intestinal tissue samples are barely accessible to study potential health benefits of nutritional compounds. Numbers of animals used in animal trials, however, need to be minimalized. Therefore, we explored the applicability of in vitro (human Caco-2 cells) and ex vivo intestine models (rat precision cut intestine slices and the pig in-situ small intestinal segment perfusion (SISP) technique) to study the effect of food compounds. In vitro digested yellow (YOd) and white onion extracts (WOd) were used as model food compounds and transcriptomics was applied to obtain more insight into which extent mode of actions depend on the model. The three intestine models shared 9,140 genes which were used to compare the responses to digested onions between the models. Unsupervised clustering analysis showed that genes up- or down-regulated by WOd in human Caco-2 cells and rat intestine slices were similarly regulated by YOd, indicating comparable modes of action for the two onion species. Highly variable responses to onion were found in the pig SISP model. By focussing only on genes with significant differential expression, in combination with a fold change > 1.5, 15 genes showed similar onion-induced expression in human Caco-2 cells and rat intestine slices and 2 overlapping genes were found between the human Caco-2 and pig SISP model. Pathway analyses revealed that mainly processes related to oxidative stress, and especially the Keap1-Nrf2 pathway, were affected by onions in all three models. Our data fit with previous in vivo studies showing that the beneficial effects of onions are mostly linked to their antioxidant properties. Taken together, our data indicate that each of the in vitro and ex vivo intestine models used in this study, taking into account their limitations, can be used to determine modes of action of nutritional compounds and can thereby reduce the number of animals used in conventional nutritional intervention studies.
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