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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A Plausible Microtubule-Based Mechanism for Cell Division Orientation in Plant Embryogenesis
Chakrabortty, Bandan ; Willemsen, Viola ; Zeeuw, Thijs de; Liao, Che Yang ; Weijers, Dolf ; Mulder, Bela ; Scheres, Ben - \ 2018
Current Biology 28 (2018)19. - ISSN 0960-9822 - p. 3031 - 3043.e2.
arabidopsis - auxin - cell shape - computational modeling - cytokinesis - division orientation - embryogenesis - microtubules - systems biology

Oriented cell divisions are significant in plant morphogenesis because plant cells are embedded in cell walls and cannot relocate. Cell divisions follow various regular orientations, but the underlying mechanisms have not been clarified. We propose that cell-shape-dependent self-organization of cortical microtubule arrays is able to provide a mechanism for determining planes of early tissue-generating divisions and may form the basis for robust control of cell division orientation in the embryo. To show this, we simulate microtubules on actual cell surface shapes, from which we derive a minimal set of three rules for proper array orientation. The first rule captures the effects of cell shape alone on microtubule organization, the second rule describes the regulation of microtubule stability at cell edges, and the third rule includes the differential effect of auxin on local microtubule stability. These rules generate early embryonic division plane orientations and potentially offer a framework for understanding patterned cell divisions in plant morphogenesis. Chakrabortty et al. show that a computational model for dynamic self-organization of cortical microtubules on experimentally extracted cell shapes provides a plausible molecular mechanism for division plane orientation in the first four divisions of early stage A. thaliana embryos, in WT as well as two developmental mutants bodenlos and clasp.

Host- and stage-dependent secretome of the arbuscular mycorrhizal fungus Rhizophagus irregularis
Zeng, Tian ; Holmer, Rens ; Hontelez, Jan ; Lintel-Hekkert, Bas te; Marufu, Lucky ; Zeeuw, Thijs de; Wu, Fangyuan ; Schijlen, Elio ; Bisseling, Ton ; Limpens, Erik - \ 2018
The Plant Journal 94 (2018)3. - ISSN 0960-7412 - p. 411 - 425.
Arbuscular mycorrhizal fungi form the most wide‐spread endosymbiosis with plants. There is very little host‐specificity in this interaction, however host preferences as well as varying symbiotic efficiencies have been observed. We hypothesize that secreted proteins (SPs) may act as fungal effectors to control symbiotic efficiency in a host‐dependent manner. Therefore, we studied whether AM fungi adjust their secretome in a host‐ and stage‐dependent manner to contribute to their extremely wide host‐range. We investigated the expression of SP‐encoding genes of Rhizophagus irregularis in three evolutionary distantly‐related plant species, Medicago truncatula, Nicotiana benthamiana and Allium schoenoprasum. In addition we used laser microdissection in combination with RNAseq to study SP expression at different stages of the interaction in Medicago. Our data indicate that most expressed SPs show roughly equal expression levels in the interaction with all three host plants. In addition, a subset shows significant differential expression depending on the host plant. Furthermore, SP expression is controlled locally in the hyphal network in response to host dependent cues. Overall, this study presents a comprehensive analysis of the R. irregularis secretome, which now offers a solid basis to direct functional studies on the role of fungal SPs in AM symbiosis.
Technology for Rooftop Greenhouses
Montero, Juan I. ; Baeza, Esteban ; Muñoz, Pere ; Sanyé-Mengual, Esther ; Stanghellini, Cecilia - \ 2017
In: Rooftop Urban Agriculture / Orsini, F., Dubbeling, M., de Zeeuw, H., Gianquinto, G., Springer (Rooftop Urban Agriculture ) - ISBN 9783319577197 - p. 83 - 101.
Rooftop greenhouses (RTGs) can generate significant advantages provided RTGs and buildings are connected in terms of energy, water and CO2 flows. Beyond the production of high-value crops, environmental benefits such as re-use of waste water, application of residual heat and absorption of carbon dioxide are derived from urban RTGs. Social benefits viz the creation of employment, social cohesion and so on are also important assets of RTGs. This chapter is focussed on RTGs technology. RTG share many common aspects with conventional greenhouses, but at the same time RTGs show attributes that should be discussed separately. Synergies such as using residual heat, rain water for irrigation, CO2 exchange, etc. are part of the common metabolism greenhouse-building. This chapter will concentrate on the available technology from conventional greenhouses which is more suitable for RTGs, particularly concerning greenhouse structure, covering materials, climate control and soilless cultivation systems.
Tissue and Organ Initiation in the Plant Embryo : A First Time for Everything
Palovaara, Joakim ; Zeeuw, Thijs de; Weijers, Dolf - \ 2016
Annual Review of Cell and Developmental Biology 32 (2016). - ISSN 1081-0706 - p. 47 - 75.
Apical-basal axis - Asymmetric cell division - Cell specification - Meristems - Plant embryogenesis - Radial patterning - Stem cells

Land plants can grow to tremendous body sizes, yet even the most complex architectures are the result of iterations of the same developmental processes: organ initiation, growth, and pattern formation. A central question in plant biology is how these processes are regulated and coordinated to allow for the formation of ordered, 3D structures. All these elementary processes first occur in early embryogenesis, during which, from a fertilized egg cell, precursors for all major tissues and stem cells are initiated, followed by tissue growth and patterning. Here we discuss recent progress in our understanding of this phase of plant life. We consider the cellular basis for multicellular development in 3D and focus on the genetic regulatory mechanisms that direct specific steps during early embryogenesis.

Plant organogenesis : Rules of order
Zeeuw, Thijs De; Weijers, Dolf - \ 2016
Current Biology 26 (2016)4. - ISSN 0960-9822 - p. R157 - R159.

Plant lateral roots have a defined developmental pattern and shape, but a key question is whether strict regulation underlies observed regularity. A new study uses long-term in toto live imaging and simulations to show that organogenesis rather follows self-organizing principles.

Urban food systems
Wiskerke, J.S.C. - \ 2015
In: Cities and Agriculture / de Zeeuw, Henk, Drechsel, Pay, Routledge (Earthscan Food and Agriculture ) - ISBN 9781138860582 - p. 1 - 25.
Meer aandacht nodig voor ui
PPO Akkerbouw, Groene Ruimte en Vollegrondsgroente, - \ 2015
Boerderij 100 (2015)30. - ISSN 0006-5617 - p. 58 - 58.
akkerbouw - uien - proeven op proefstations - gewasbescherming - plantenziekteverwekkende schimmels - economische samenwerking - arable farming - onions - station tests - plant protection - plant pathogenic fungi - economic cooperation
Akkerbouwer Jaap de Zeeuw is voorzitter van het Platform Nederlandse Uientelers. Hier en daar duikt de naam van deze organisatie op, onder meer als participant in het koprotonderzoek met PPO.
COMMENTARY: Climate engineering reconsidered
Barrett, S. ; Lenton, T.M. ; Millner, A. ; Tavoni, A. ; Carpenter, S. ; Anderies, J.M. ; Chapin, F.S. ; Crepin, A.S. ; Daily, G. ; Ehrlich, P. ; Folke, C. ; Galaz, V. ; Hughes, T. ; Kautsky, N. ; Lambin, E.F. ; Naylor, R. ; Nyborg, K. ; Polasky, S. ; Scheffer, M. ; Wilen, J. ; Xepapadeas, A. ; Zeeuw, A. de - \ 2014
Nature Climate Change 4 (2014)7. - ISSN 1758-678X - p. 527 - 529.
Does aquaculture add resilience to the global food system?
Troell, M. ; Naylor, R.L. ; Metian, M. ; Beveridge, M. ; Tyedmers, P.H. ; Folke, C. ; Arrow, K.J. ; Barrett, S. ; Crepin, A.S. ; Ehrlich, P. ; Gren, R. ; Kautsky, N. ; Levin, S.A. ; Nyborg, K. ; Osterblom, H. ; Polasky, S. ; Scheffer, M. ; Walker, B.H. ; Xepapadeas, T. ; Zeeuw, A. de - \ 2014
Proceedings of the National Academy of Sciences of the United States of America 111 (2014)37. - ISSN 0027-8424 - p. 13257 - 13263.
fish - nutrition - impacts - prices - era
Aquaculture is the fastest growing food sector and continues to expand alongside terrestrial crop and livestock production. Using portfolio theory as a conceptual framework, we explore how current interconnections between the aquaculture, crop, livestock, and fisheries sectors act as an impediment to, or an opportunity for, enhanced resilience in the global food system given increased resource scarcity and climate change. Aquaculture can potentially enhance resilience through improved resource use efficiencies and increased diversification of farmed species, locales of production, and feeding strategies. However, aquaculture's reliance on terrestrial crops and wild fish for feeds, its dependence on freshwater and land for culture sites, and its broad array of environmental impacts diminishes its ability to add resilience. Feeds for livestock and farmed fish that are fed rely largely on the same crops, although the fraction destined for aquaculture is presently small (~4%). As demand for high-value fed aquaculture products grows, competition for these crops will also rise, as will the demand for wild fish as feed inputs. Many of these crops and forage fish are also consumed directly by humans and provide essential nutrition for low-income households. Their rising use in aquafeeds has the potential to increase price levels and volatility, worsening food insecurity among the most vulnerable populations. Although the diversification of global food production systems that includes aquaculture offers promise for enhanced resilience, such promise will not be realized if government policies fail to provide adequate incentives for resource efficiency, equity, and environmental protection.
Structuurvisie Vianen : Toetsingsadvies over het mileueffectrapport
Broekmeyer, M.E.A. ; Eck, M. van; Tas, M.A.J. van der; Termorshuizen, J. ; Zeeuw, J.H. de - \ 2012
Utrecht : MER, commissie voor de mileueffectrapportage - ISBN 9789042136021 - 9 p.
Immunomodulatory effects of potential probiotics in a mouse peanut sensitization model
Meijerink, M. ; Wells, J. ; Taverne, N. ; Zeeuw Brouwer, M.L. de; Hilhorst, B. ; Venema, K. ; Bilsen, J. van - \ 2012
FEMS Immunology and Medical Microbiology 65 (2012)3. - ISSN 0928-8244 - p. 488 - 496.
lactic-acid bacteria - placebo-controlled trial - regulatory t-cells - blood mononuclear-cells - atopic-dermatitis - dendritic cells - food allergy - lactobacillus-rhamnosus - cytokine production - responses
Peanut allergy accounts for the majority of severe food-related allergic reactions and there is a need for new prevention and treatment strategies. Probiotics may be considered for treatment on the basis of their immunomodulating properties. Cytokine profiles of probiotic strains were determined by in vitro co-culture with human PBMCs. Three strains were selected to investigate their prophylactic potential in a peanut sensitization model by analysing peanut-specific antibodies, mast cell degranulation and ex vivo cytokine production by splenocytes. The probiotic strains induced highly variable cytokine profiles in PBMCs. L. salivarius HMI001, L. casei Shirota (LCS) and L. plantarum WCFS1 were selected for further investigation owing to their distinct cytokine patterns. Prophylactic treatment with both HMI001 and LCS attenuated the Th2 phenotype (reduced mast cell responses and ex vivo IL-4 and/or IL-5 production). In contrast, WCFS1 augmented the Th2 phenotype (increased mast cell and antibody responses and ex vivo IL-4 production). In vitro PBMC screening was useful in selecting strains with anti-inflammatory and Th1 skewing properties. In case of HMI001 (high IL-10/IL-12 ratio) and LCS (high interferon- and IL-12), partial protection was seen in a mouse peanut allergy model. Strikingly, certain strains may worsen the allergic reaction as shown in the case of WCFS1.
Structuurvisie Vianen Advies over reikwijdte en detailniveau van het milieueffectrapport
Broekmeyer, M.E.A. ; Spel, D. ; Tas, M.A.J. van der; Termorshuizen, J.J. ; Zeeuw, J.H. de - \ 2011
Utrecht, The Netherlands : MER - ISBN 9789042132993 - 8
bestemmingsplannen - milieueffectrapportage - gemeenten - utrecht - zoning plans - environmental impact reporting - municipalities
Met het vaststellen van de structuurvisie 2030 wil de gemeente Vianen op hoofdlijnen richting geven aan en samenhang brengen in de ruimtelijke ontwikkelingen op het grondgebied die voortkomen uit rijks-, provinciaal en gemeentelijk beleid. Het MER zal inzicht moeten geven in de ontwikkelingen die de structuurvisie maximaal mogelijk maakt, voor zover deze relevant zijn voor het voorspellen van de milieueffecten
Structuurvisie gemeente Heemskerk, Toetsingsadvies over het milieueffectrapport
Broekmeyer, M.E.A. ; Kerkhoff, R.J. van; Korf, G. ; Tommel, D.K.J. ; Zeeuw, J.H. de - \ 2011
Utrecht : Commissie voor de Milieueffectrapportage (rapportnummer 2548–47) - ISBN 9789042133198 - 8
natura 2000 - regionale planning - milieueffectrapportage - gemeenten - kennemerland - regional planning - environmental impact reporting - municipalities
De gemeente Heemskerk wil een nieuwe structuurvisie voor haar gehele grondgebied vaststellen. Daarmee wordt de bestaande structuurvisie uit 2003 geactualiseerd. De structuurvisie is kaderstellend voor activiteiten die mogelijk significante gevolgen hebben voor het Natura 2000-gebied ‘Noordhollands Duinreservaat’
Verankering RGI: overbrugging van de kloof tussen innovaties en duurzaam gebruik
Overduin, T. ; Zeeuw, K. de; Bregt, A.K. - \ 2009
VI Matrix 17 (2009)4. - ISSN 0929-6107 - p. 38 - 40.
Measurement of trace elements in liver biopsy samples from cattle
Ouweltjes, W. ; Zeeuw, A.C. de; Moen, A. ; Counotte, G.H.M. - \ 2007
Tijdschrift voor Diergeneeskunde 132 (2007)3. - ISSN 0040-7453 - p. 76 - 83.
urine-analyse - diagnostische technieken - biopsie - diagnose - sporenelementen - rundvee - sporenelementtekorten - diervoeding - mineralenvoeding - lever - urine analysis - diagnostic techniques - biopsy - diagnosis - trace elements - cattle - trace element deficiencies - animal nutrition - mineral nutrition - liver - mineral status - beef-cattle - copper - zinc - supplementation - manganese - calves - iron
Serum, plasma, or urine samples are usually used for the measurement of the trace elements copper, zinc, iron, selenium, because these samples are easy to obtain; however, these samples are not always appropriate. For example, it is not possible to measure molybdenum, the major antagonist of copper, in blood or urine. Therefore measurement of trace elements in liver tissue is considered the gold standard. For the assessment of selenium the method of choice remains determination of glutathion peroxidase in erythrocytes and for the assessment of magnesium determination of magnesium in urine. We determined the accuracy and repeatability of measuring trace elements in liver biopsies and whole liver homogenates. The levels of trace elements measured were similar in both preparations (92% agreement). Liver biopsy in live animals is a relatively simple procedure but not common in the Netherlands. Reference levels of trace elements, classified as too low, low, adequate, high, and too high, were established on the basis of our research and information in the literature. In a second study we investigated the practical aspects of obtaining liver tissue samples and their use. Samples were collected from cattle on a commercial dairy farm. Liver biopsy provided additional information to that obtained from serum and urine samples. We prepared a biopsy protocol and a test package, which we tested on 14 farms where an imbalance of trace minerals was suspected. Biopsy samples taken from 4 to 6 animals revealed extreme levels of trace elements
Frameworks and Interactive Tools for Scientific Knowledge Systematization
Wien, J.J.F. ; Jansen, J.M.L. ; Zeeuw, C.J. de; Roosenschoon, O.R. - \ 2007
In: MODSIM 2007 International Congress on Modelling and Simulation, Christenchurch, New Zealand, 10 - 13 December, 2007. - Modelling and Simulation Society of Australia and New Zealand - ISBN 9780975840047 - p. 819 - 825.
From Soldiers to Politicians. Transforming Rebel Movements After Civil War
Richards, P. - \ 2007
In: From Soldiers to Politicians: Transforming Rebel Movements After Civil War / de Zeeuw, J, Boulder (Colorado) : Lynne Rienner Publishers - ISBN 9781588265807 - 296 p.
Vrijgeven van overheids(geo-)informatie
Zeeuw, C.J. de; Bregt, A.K. ; Jong, L. de; Crompvoets, J.W.H.C. ; Wien, J.J.F. - \ 2007
Geo-Info 4 (2007)1. - ISSN 1572-5464 - p. 20 - 26.
informatieverspreiding - distributie - fysische geografie - infrastructuur - diffusion of information - distribution - physical geography - infrastructure
Nu de digitalisering en informatisering van onze samenleving snel toenemen, ontstaat de vraag of de overheid haar geo-informatiebeleid moet aanpassen en deze informatie ook vrij beschikbaar moet stellen aan burgers en organisaties zodat maatschappelijke (en economische) ontwikkelingen niet worden geremd. Onduidelijk is echter welke maatschappelijke effecten kunnen worden verwacht indien de overheid dit doet. In dit artikel worden de resultaten van een korte verkennende studie gepresenteerd. Kortom: de toegang van burgers en overheden tot geo-informatie
Tijd voor beleid. Over Geo Informatie, Geonovum en LNV
Selnes, T. ; Zeeuw, K. de - \ 2006
Wageningen : LEI / Alterra
Mogelijkheden voor GIS gebruik bij de Bos- en Natuurbeheerautoriteit Suriname (BOSNAS); inventarisatie van kennisbeheoefte en ontwikkelingsplan
Zeeuw, C.J. de; Vanmeulebrouk, B. ; Arets, E.J.M.M. - \ 2006
Wageningen : Alterra (Alterra-rapport 1423) - 70
geografische informatiesystemen - natuurbescherming - bosbedrijfsvoering - suriname - informatiesystemen - geographical information systems - nature conservation - forest management - information systems
Gedurende twee missies is door Alterra een inventarisatie gemaakt van de kennisbehoefte en een ontwikkelingsplan opgesteld ten behoeve van GIS gebruik bij de nog op te richten Bos- en Natuurautoriteit (BOSNAS) in Suriname. Binnen BOSNAS zullen de huidige Stichting Bosbeheer en Bostoezicht (SBB) en de afdeling Natuurbeheer (NB) van ‘s-Lands Bosbeheer samengevoegd worden. Naast een probleemanalyse wordt aangegeven hoe BOSNAS een rol kan gaan spelen in de nationale geo-informatie-infrastructuur van Suriname en hoe het kan functioneren als een geo-loket voor Bos en Natuur
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