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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GEM model for soilless cultures: review of process descriptions and suggestions for improvement
Boesten, J.J.T.I. ; Wipfler, E.L. ; Os, E.A. van; Hoogsteen, M. - \ 2019
Wageningen : Wageningen Environmental Research (Report / Wageningen Environmental Research 2950) - 67
The GEM model developed for soilless cultures consists of different submodels (A) for applications to crops grown on mats by drip irrigation, (B) for spray applications to crops grown on such mats, and (C) is for spray applications to crops grown in pots in an ebb/flood system (GEM-A, GEM-B, and GEM-C). The descriptions of the processes for pesticide behaviour in these submodels were reviewed, considering also their consistency with measurements available in the literature. For GEM-A it is recommended to include sorption to the mats, the foil surrounding the mats and the irrigation pipes and to include partitioning between the water in the mats and the plant roots. For GEM-B it is recommended to include direct contamination of the substrate mats and the troughs resulting from spray and Low Volume Mister (LVM) applications. For GEM-B and GEM-C it is recommended (i) to revise the procedures for calculating the initial concentrations in the air and the condensation water, (ii) to include deposition onto the roof by spray and LVM applications, (iii) to revise the procedure for calculating the volatilisation rates from the plant surfaces. For GEM-C it is recommended (i) to omit the sorption equilibration between the bottom 10 cm of the soil in the pots and the water on the ebb/flood tables, (ii) to revise the procedure for the flux in the gas phase between the greenhouse air and the top layer of the soil in the pots, and (iii) to use a crop-specific value for the fraction of the surface area covered by the pots.
Vismonitoring Zoete Rijkswateren en Overgangswateren t/m 2017 : Deel II: Toegepaste methoden
Sluis, M.T. van der; Tien, N.S.H. ; Griffioen, A.B. ; Keeken, O.A. van; Os-Koomen, E. van; Wiegerinck, J.A.M. - \ 2019
IJmuiden : Wageningen Marine Research (Wageningen Marine Research rapport C007.19a) - 101
Optogenetic control shows that kinetic proofreading regulates the activity of the T cell receptor
Yousefi, O.S. ; Günther, Matthias ; Hörner, Maximilian ; Chalupsky, Julia ; Wess, Maximilian ; Brandl, Simon M. ; Smith, Robert W. ; Fleck, Christian ; Kunkel, Tim ; Zurbriggen, Matias D. ; Höfer, Thomas ; Weber, Wilfried ; Schamel, Wolfgang W.A. - \ 2019
eLife 8 (2019). - ISSN 2050-084X
A. thaliana - dynamics - human - immunology - inflammation - ligand-receptor - optogenetics - signaling - T cells

The immune system distinguishes between self and foreign antigens. The kinetic proofreading (KPR) model proposes that T cells discriminate self from foreign ligands by the different ligand binding half-lives to the T cell receptor (TCR). It is challenging to test KPR as the available experimental systems fall short of only altering the binding half-lives and keeping other parameters of the interaction unchanged. We engineered an optogenetic system using the plant photoreceptor phytochrome B (PhyB) as a ligand to selectively control the dynamics of ligand binding to the TCR by light. This opto-ligand-TCR system was combined with the unique property of PhyB to continuously cycle between the binding and non-binding states under red light, with the light intensity determining the cycling rate and thus the binding duration. Mathematical modeling of our experimental datasets showed that indeed the ligand-TCR interaction half-life is the decisive factor for activating downstream TCR signaling, substantiating KPR.

Effects of Maerua subcordata (Gilg) DeWolf on electrophile-responsive element (EpRE)mediated gene expression in vitro
Hiben, Mebrahtom Gebrelibanos ; Haan, Laura De; Spenkelink, Bert ; Wesseling, Sebas ; Louisse, Jochem ; Vervoort, Jacques ; Rietjens, Ivonne M.C.M. - \ 2019
PLoS ONE 14 (2019)4. - ISSN 1932-6203

Plant extracts and phytochemicals may prevent chronic diseases via activation of adaptive cellular stress response pathways including induction of antioxidant and phase II detoxifying enzymes. The regulatory regions of these inducible genes encode the electrophile-response element (EpRE). This study tested the EpRE induction ability of Maerua subcordata (fruit, leaf, root, seed) methanol extracts and selected candidate constituents thereof, identified by liquid chromatography coupled with multistage mass spectroscopy, employing an EpRE luciferase reporter gene assay using hepa-1c1c7 mouse hepatoma cells. A parallel Cytotox CALUX assay using human osteosarcoma U2OS cells was used to monitor any non-specific changes in luciferase activity or cytotoxicity. Results showed that fruit, root, and seed extracts were non-cytotoxic up to a concentration of 30 gram dry weight per litre but the leaf extract exhibited some cytotoxicity and that the leaf (despite some cytotoxicity), fruit, and seed extracts showed strong induction of EpRE mediated gene expression while induction by the root extract was minimal. Selected candidates included glucosinolates, isothiocyanates, and some biogenic amines. Subsequent studies showed that methyl-, ethyl-, isopro-pyl-, isobutyl- isothiocyanates, and sec-butyl thiocyanate as well as glucobrassicin induced concentration (1–100 μM) dependent EpRE-mediated gene expression while the biogenic amines stachydrine and trigonelline acted as inhibitors of EpRE-mediated gene expression at 100 μM. The identification of glucolepidiin, glucobrassicin, glucocapparin, stachydrine, and trigonelline in all extracts was confirmed using standards and based on multiple reaction monitoring; yet, glucobrassicin level in the root extract was negligible. In conclusion, this study provided a first report on EpRE mediated gene expression effects of M. subcordata; and despite detection of different glucosinolates in all extracts, those containing glucobrassicin particularly displayed high EpRE induction. Because EpRE inducers are cytoprotective and potential chemopreventive agents while inhibitors are suggested adjuvants of chemotherapy, results of this study imply that process manipulation of this plant may result in herbal preparations that may be used as chemopreventive agents or adjuvants of chemotherapies.

The baculovirus Ac108 protein is a per os infectivity factor and a component of the ODV entry complex
Boogaard, Bob ; Evers, Felix ; Lent, Jan W.M. van; Oers, Monique M. van - \ 2019
Journal of General Virology 100 (2019)4. - ISSN 0022-1317 - p. 669 - 678.
m91 - ODV entry complex - per osinfectivity factor - PIF - PIF9 - sf58

Wild-type ODVs (Wt) have an intact ODV entry complex in their envelope and are orally infectious towards insect larvae (left panel). In the absence of Ac108 (mut ac108), the stable core is still present but nevertheless fails to form an entry complex, affecting the ODV oral infectivity (right panel). The components of the core complex are depicted in yellow and the loosely associated components are depicted in red. PIF7 is depicted in green as its affinity with the complex is currently not known.Baculoviruses orally infect insect larvae when they consume viral occlusion bodies (OBs). OBs consist of a crystalline protein matrix in which the infectious virus particles, the occlusion-derived viruses (ODVs), are embedded. The protein matrix dissolves in the alkaline environment of the insect's midgut lumen. The liberated ODVs can then infect midgut endothelial cells through the action of at least nine different ODV-envelope proteins, called per os infectivity factors (PIFs). These PIF proteins mediate ODV oral infectivity, but are not involved in the systemic spread of the infection by budded viruses (BVs). Eight of the known PIFs form a multimeric complex, named the ODV entry complex. In this study, we show for Autographa californica multiple nucleopolyhedrovirus that mutation of the ac108ORF abolishes the ODV oral infectivity, while production and infectivity of the BVs remains unaffected. Furthermore, repair of the ac108 mutant completely recovered oral infectivity. With an HA-tagged repair mutant, we were able to demonstrate by Western analysis that the Ac108 protein is a constituent of the ODV entry complex, where the formation was abolished in the absence of this protein. Based on these results, we conclude that ac108 encodes a per os infectivity factor (PIF9) that is also an essential constituent of the ODV entry complex.

Zonneparken natuur en landbouw
Zee, Friso van der; Bloem, Jaap ; Galama, Paul ; Gollenbeek, Luuk ; Os, Jaap van; Schotman, Alex ; Vries, Sjerp de - \ 2019
Wageningen : Wageningen Environmental Research (Wageningen Environmental Research rapport 2945) - 67
The transition to sustainable energy is in full swing. There is a great challenge to meet our energy requirements with sustainable energy sources. Solar power and the construction of solar parks are currently experiencing strong growth. In 2018 the solar power installed has increased by 46%. The area of solar parks on the ground is growing faster than the surface solar panels on roofs. In the Netherlands there is discussion about the use of scarce space for installing solar panels. The use of roofs on new and existing buildings is an efficient use of space, but the outdoor area offers developers of solar parks many advantages, such as scale. Little research has been done into the effects of solar parks on nature, agriculture and landscape. Ground-based solar parks have effects on the soil, agriculture, the biodiversity and services that the landscape provides. Whether these effects are positive or negative depends on the initial situation at the location in question and on the design and management of the solar park. This study provides an overview of the literature on solar parks in relation to soil, agriculture, biodiversity and experience.
Ruimtelijke allocatie van mesttoediening en ammoniakemissie : beschrijving mestverdelingsmodule INITIATOR versie 5
Kros, Hans ; Os, Jaap van; Voogd, Jan Cees ; Groenendijk, Piet ; Bruggen, Cor van; Molder, Romuald te; Ros, Gerard - \ 2019
Wageningen : Wageningen Environmental Research (Wageningen Environmental Research rapport 2939) - 95
Evaluatie programma landbouwstructuurversterking Overijssel
Boonstra, F.G. ; Os, J. van; Prins, H. ; Rijk, P.J. ; Vogelzang, T.A. - \ 2019
Wageningen : Wageningen Environmental Research (Wageningen Environmental Research rapport 2941) - 61
Baculovirus per os infectivity factor complex : Components and assembly
Wang, Xi ; Shang, Yu ; Chen, Cheng ; Liu, Shurui ; Chang, Meng ; Zhang, Nan ; Hu, Hengrui ; Zhang, Fenghua ; Zhang, Tao ; Wang, Zhiying ; Liu, Xijia ; Lin, Zhe ; Deng, Fei ; Wang, Hualin ; Zou, Zhen ; Vlak, Just M. ; Wang, Manli ; Hu, Zhihong - \ 2019
Journal of Virology 93 (2019)6. - ISSN 0022-538X
Baculovirus - Entry - Per os infectivity factor - PIF complex - PIF9

Baculovirus entry into insect midgut cells is dependent on a multiprotein complex of per os infectivity factors (PIFs) on the envelopes of occlusion-derived virions (ODVs). The structure and assembly of the PIF complex are largely unknown. To reveal the complete members of the complex, a combination of blue native polyacrylamide gel electrophoresis, liquid chromatography-tandem mass spectrometry, and Western blotting was conducted on three different baculoviruses. The results showed that the PIF complex has a molecular mass of ~500 kDa and consists of nine PIFs, including a newly discovered member (PIF9). To decipher the assembly process, each pif gene was knocked out from the Autographa californica multicapsid nucleopolyhedrovirus (AcMNPV) genome individually by use of synthetic baculovirus technology, and the impact on PIF complex formation was investigated. Deletion of pif8 resulted in the formation of an ~400-kDa subcomplex. Deletion of pif0, -4, -6, -7, or -9 resulted in a subcomplex of ~230 kDa, but deletion of pif1, -2, or -3 abolished formation of any complex. Taken together, our data identified a core complex of ~230 kDa, consisting of PIF1, -2, and -3. This revised the previous knowledge that the core complex was about 170 kDa and contained PIF1 to -4. Analysis of the PIF complex in cellular fractions suggested that it is assembled in the cytoplasm before being transported to the nucleus and subsequently incorporated into the envelopes of ODVs. Only the full complex, not the subcomplex, is resistant to proteolytic attack, indicating the essentiality of correct complex assembly for oral infection. IMPORTANCE Entry of baculovirus into host insects is mediated by a per os infectivity factor (PIF) complex on the envelopes of occlusion-derived viruses (ODVs). Knowledge of the composition and structure of the PIF complex is fundamental to understanding its mode of action. By using multiple approaches, we determined the complete list of proteins (nine) in the PIF complex. In contrast to previous knowledge in the field, the core complex is revised to ~230 kDa and consists of PIF1 to -3 but not PIF4. Interestingly, our results suggest that the PIF complex is formed in the cytoplasm prior to its transport to the nucleus and subsequent incorporation into ODVs. Only the full complex is resistant to proteolytic degradation in the insect midgut, implying the critical role of the entire complex. These findings provide the baseline for future studies on the ODV entry mechanism mediated by the multiprotein complex.

Erratum to “Investigation of Clostridium botulinum group III's mobilome content”
Woudstra, Cédric ; Maréchal, Caroline Le; Souillard, Rozenn ; Anniballi, Fabrizio ; Auricchio, Bruna ; Bano, Luca ; Bayon-Auboyer, Marie Hélène ; Koene, Miriam ; Mermoud, Isabelle ; Brito, Roseane B. ; Lobato, Francisco C.F. ; Silva, Rodrigo O.S. ; Dorner, Martin B. ; Fach, Patrick - \ 2019
Anaerobe 57 (2019). - ISSN 1075-9964 - p. 117 - 117.
Os pequenos grandes: desafios da pecuária de cria sustentável na Amazônia e o potencial dos Núcleos de inovação e aprendizagem (NIAs) : estudo para analisar o potencial de implantação de Núcleos de Inovação e Aprendizagem (NIAs) para a disseminação de práticas inovadoras em pecuária de cria com vistas à mitigação de gases de efeito estufa
Paiva Serôa da Motta, Raquel de; Munch Cavalcanti, Cintia ; Brandão, Joyce ; Pereira, Mariana ; Lima, Paulo ; Domeniconi, Beatriz - \ 2018
Wageningen : Wageningen Livestock Research (Wageningen Livestock Research Report 1177) - 80
Sensoren voor meststoffen en gewasbeschermingsmiddelen (AGRINUPES)
Balendonck, J. ; Os, E.A. van; Ruijven, J.P.M. van; Beerling, E.A.M. - \ 2018
- 1 p.
Emission-free growing on unbuffered coco with good results
Os, Erik van; Janse, Jan - \ 2018
Steeds meer buren zijn geen boer
Os, J. van; Smidt, R.A. - \ 2018
Geo-Info 15 (2018)4. - ISSN 1572-5464 - p. 38 - 41.
Feiten en cijfers over de Nederlandse veehouderijsectoren 2018
Peet, Geert van der; Leenstra, Ferry ; Vermeij, Izak ; Bondt, Nico ; Puister, Linda ; Os, Jaap van - \ 2018
Wageningen : Wageningen Livestock Research (Wageningen Livestock Research rapport 1134) - 109
The Dutch Ministry of Agriculture, Nature and Food Quality has asked Wageningen Research to provide an overview of facts and figures in the different livestock sectors. The overview refers to size of the sector, economic data, production, production and quality systems and data on the impact of the sector on environment, public health, animal health and animal welfare.
Phase II study of ERC1671 plus bevacizumab versus bevacizumab plus placebo in recurrent glioblastoma : interim results and correlations with CD4+ T-lymphocyte counts
Bota, Daniela A. ; Chung, Jinah ; Dandekar, Manisha ; Carrillo, Jose A. ; Kong, Xiao Tang ; Fu, Beverly D. ; Hsu, Frank Pk ; Schönthal, Axel H. ; Hofman, Florence M. ; Chen, Thomas C. ; Zidovetzki, Raphael ; Pretto, Chrystel ; Strik, Ankie ; Schijns, Virgil E.J.C. ; Stathopoulos, Apostolos - \ 2018
JAMA Oncology 7 (2018)3. - ISSN 2374-2437 - p. CNS22 - CNS22.
allogeneic - autologous - bevacizumab - CD4+ T lymphocyte - ERC1671 - GBM - GBM vaccine - glioma surgery - immunotherapy

AIM: ERC1671 is an allogeneic/autologous therapeutic glioblastoma (GBM) vaccine - composed of whole, inactivated tumor cells mixed with tumor cell lysates derived from the patient and three GBM donors.

METHODS: In this double-blinded, randomized, Phase II study bevacizumab-naive patients with recurrent GBM were randomized to receive either ERC1671 in combination with granulocyte-macrophage colony-stimulating factor (GM-CSF) (Leukine® or sargramostim) and cyclophosphamide plus bevacizumab, or placebo plus bevacizumab. Interim results: Median overall survival (OS) of patients treated with ERC1671 plus bevacizumab was 12 months. In the placebo plus bevacizumab group, median OS was 7.5 months. The maximal CD4+ T-lymphocyte count correlated with OS in the ERC1671 but not in the placebo group.

CONCLUSION: The addition of ERC1671/GM-CSF/cyclophosphamide to bevacizumab resulted in a clinically meaningful survival benefit with minimal additional toxicity.

Effect reinigingsmiddelen op kwaliteit gietwater
Os, E.A. van - \ 2018
Onder Glas 15 (2018)1. - p. 57 - 57.
Cannibalism as a possible entry route for opportunistic pathogenic bacteria to insect hosts, exemplified by pseudomonas aeruginosa, a pathogen of the giant mealworm zophobas morio
Maciel-Vergara, Gabriela ; Jensen, Annette Bruun ; Eilenberg, Jørgen - \ 2018
Insects 9 (2018)3. - ISSN 2075-4450
Bacterial infection - Cannibalism - Disease transmission - Entry route - Insect rearing - Opportunistic microorganism

Opportunistic bacteria are often ubiquitous and do not trigger disease in insects unless the conditions are specifically favorable for bacterial development in a suitable host. In this paper, we isolated and identified a bacterium, Pseudomonas aeruginosa, from the larvae of the giant mealworm Zophobas morio and we studied the possible entry routes by challenging larvae with per os injection and subdermal injection. We also evaluated the effect of exposing groups of larvae to P. aeruginosa inoculated in their feed and the effect of exposing wounded larvae to P. aeruginosa. We concluded that the mortality rate of Z. morio larvae is higher when P. aeruginosa gets in direct contact with the hemolymph via intracoelomic injection compared to a situation where the bacterium is force-fed. Larvae with an open wound exposed to P. aeruginosa presented higher mortality rate compared to larvae with a wound that was not exposed to the bacterium. We documented too, that cannibalism and scavenging was more prevalent among larvae in a group, when P. aeruginosa is present compared to when it is absent. We discuss hereby different aspects related with the pathogen’s entry routes to insects the complexity of pathogen’s transmission in high population densities and different ways to prevent and/or control P. aeruginosa in mass rearing systems.

An advanced view on Baculovirus per Os infectivity factors
Boogaard, Bob ; Oers, Monique M. van; Lent, Jan W.M. van - \ 2018
Insects 9 (2018)3. - ISSN 2075-4450
Baculovirus - Membrane fusion - ODV entry complex - ODV-E56 - ODV-E66 - Per os infectivity factors - Pif - Protein trafficking - R18 de-quenching assay

Baculoviruses are arthropod-specific large DNA viruses that orally infect the larvae of lepidopteran, hymenopteran and dipteran insect species. These larvae become infected when they eat a food source that is contaminated with viral occlusion bodies (OBs). These OBs contain occlusion-derived viruses (ODVs), which are released upon ingestion of the OBs and infect the endothelial midgut cells. At least nine different ODV envelope proteins are essential for this oral infectivity and these are denoted per os infectivity factors (PIFs). Seven of these PIFs form a complex, consisting of PIF1, 2, 3 and 4 that form a stable core complex and PIF0 (P74), PIF6 and PIF8 (P95) that associate with this complex with lower affinity than the core components. The existence of a PIF complex and the fact that the pif genes are conserved in baculovirus genomes suggests that PIF-proteins cooperatively mediate oral infectivity rather than as individual functional entities. This review therefore discusses the knowledge obtained for individual PIFs in light of their relationship with other members of the PIF complex.

Pathogenen in dierlijke mest: Riskant?
Os, J. van; Hoeksma, P. ; Mevius, D.J. ; Overbeek, L.S. van; Engelen, E. van; Lahr, J. - \ 2018
Tijdschrift Milieu : Vereniging van milieuprofessionals 2018 (2018)5. - p. 47 - 52.
Door aanscherping van mestgebruiksnormen worden transport en verwerking van dierlijke mest in Nederland steeds noodzakelijker. Dat leidt tot een afname van de Milieubelasting door mineralen in de mest, maar wat betekent het voor de veiligheid? bij de Q-koortsepidemie kon een verband worden gezien met het uitrijden van mest van besmette bedrijven. Bestaat dit risico nog steeds en hoe zit het eigenlijk met andere ziekteverwekkers? Uit een verkennende brainstorm met deskundigen blijkt dat we momenteel niet geconfronteerd worden met grote risico's. Wel zijn er punten naar voren gekomen die de aandacht verdienen om deze risico's beperkt te houden.
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