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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Maisteelt en bodemdaling op Veenweide in Friesland : eindrapportage demonstratie 2017-2018
Wesselink, Marie ; Verhoeven, John ; Schooten, Herman van; Essen, Everhard van - \ 2019
Lelystad : Stichting Wageningen Research (WR), business unit Open Teelten (Stichting Wageningen Research (WR), business unit Open Teelten rapport WPR-780) - 42
Roots, Tubers and Bananas: Contributions to Food Security
Kennedy, G. ; Raneri, Jessica ; Stoian, Dietmar ; Attwood, S. ; Burgos, Gabriela ; Ceballos, Herman ; Ekesa, Beatrice ; Johnson, V. ; Low, Jan W. ; Talsma, E.F. - \ 2019
In: Encyclopedia of Food Security and Sustainability / Ferranti, Pasquale, Anderson, Jack R., Berry, Elliot M., Elsevier - ISBN 9780128126882 - p. 231 - 256.
The class of root, tuber and banana (RTB) crops encompasses banana and plantain, cassava, potato, sweet potato, taro, yam and a number of lesser cultivated and consumed root and tuber crops. RTB are the second most important group of crops in LDCs after cereals. RTB are vital for food security, with parts of sub-Saharan Africa, Asia and Latin America relying on RTB as main staple foods in their diets. They provide up to 15% or more of the daily per capita dietary energy for the 763 million people living in the least developed countries. Production, yield and area planted for most RTB are showing increasing trends. While most RTB are used for food, feed and biofuel uses are growing. With vast genetic diversity RTB play an important role in the food systems of countries worldwide. The CGIAR has been actively working within this genetic diversity to improve the nutritional content of some RTB. Most notably varieties of banana, cassava and sweet potato have been successfully identified for higher pro-vitamin A content, while potatoes with higher iron and zinc content are also available. The use of varieties with higher pro-vitamin A, iron and zinc will contribute to reductions in micronutrient deficiencies. Many of the leaves of RTB, most notably cassava and sweet potato are also consumed, sometimes in large amounts and contribute to both diversity of the diet as well as increased intake of essential micronutrients. Threats from pests and disease to which these crops are susceptible are among the largest concerns. The impact of changing climate on resistance to disease/pest threats as well as yield and longer-term sustainability issues is also of concern. Finally, greater research and development on propagation and post-harvest storage and processing is needed for some of the lesser RTB crops.
Discovery of Sabellaria spinulosa reefs in an intensively fished area of the Dutch Continental Shelf, North Sea
Reijden, Karin J. Van Der; Koop, Leo ; O'flynn, Sarah ; Garcia, Silvia ; Bos, Oscar ; Sluis, Christiaan Van; Maaholm, David J. ; Herman, Peter M.J. ; Simons, Dick G. ; Olff, Han ; Ysebaert, Tom ; Snellen, Mirjam ; Govers, Laura L. ; Rijnsdorp, Adriaan D. ; Aguilar, Ricardo - \ 2019
Journal of Sea Research 144 (2019). - ISSN 1385-1101 - p. 85 - 94.
Biogenic Reef - Brown Bank - Ecosystem Engineer - Sabellaria spinulosa - North Sea
The tube-building polychaete Sabellaria spinulosa (Ross worm) can form conspicuous biogenic reefs that stabilize the seabed and increase biodiversity by providing a habitat for a multitude of other species. These reefs, however, are assumed to be vulnerable to human-induced physical disturbances of the seabed. In the Greater North Sea, S. spinulosa reefs are recognized to be under threat and worthy of protection. In August 2017, three S. spinulosa reefs with a minimum extent of 1016m2 were discovered in the Dutch Brown Bank area. This area comprises a large-scale sandbank and adjacent troughs. The reefs were found within the sandbank troughs, which have proven to be subject to high demersal fishing intensities (fished>5 times a year). Detailed bathymetry measurements showed that S. spinulosa reefs were mainly located within valleys of smaller-scaled sand waves, which have a perpendicular orientation compared to the large-scale sandbank structure of the Brown Bank. We hypothesize that the valleys in between sand waves offer suitable substrate for settlement and refuge from abrasion by fishing activities, enabling the S. spinulosa reefs to persist despite high fishing intensities. ROV footage of the reefs showed higher estimates of species abundances on the reefs compared with adjacent habitats, with some species present that are typical for hard substrate (rock gunnel, Pholis gunnellus; edible crab, Cancer pagurus; and velvet swimming crab, Necora puber). The information presented could be used for drafting management policies to protect these reefs, as Contracting Parties of the OSPAR Convention are committed to take measures and protect biodiversity.
EFSA Scientific Colloquium 24 – 'omics in risk assessment: state of the art and next steps
Aguilera, Jaime ; Aguilera‐gomez, Margarita ; Barrucci, Federica ; Cocconcelli, Pier Sandro ; Davies, Howard ; Denslow, Nancy ; Lou Dorne, Jean ; Grohmann, Lutz ; Herman, Lieve ; Hogstrand, Christer ; Kass, George E.N. ; Kille, Peter ; Kleter, Gijs ; Nogué, Fabien ; Plant, Nick J. ; Ramon, Matthew ; Schoonjans, Reinhilde ; Waigmann, Elisabeth ; Wright, Matthew C. - \ 2018
EFSA Supporting Publications 15 (2018)11. - ISSN 2397-8325
In recent years, the development of innovative tools in genomics, transcriptomics, proteomics and metabolomics (designated collectively as 'omics technologies) has opened up new possibilities for applications in scientific research and led to the availability of vast amounts of analytical data. The interpretation and integration of 'omics data can provide valuable information on the functional status of an organism and on the effect of external factors such as stressors. The European Food Safety Authority's (EFSA) 24th Scientific Colloquium on 'omics in risk assessment: state of the art and next steps explored the opportunities for integration of datasets produced via specific 'omics tools within the remit of EFSA's risk assessment approaches and tried to build further towards concrete paths of implementation. Discussions focused on genomics in microbial strain characterisation, metabolomics for the comparative assessment of GM plants and the use of 'omics for toxicological and environmental risk assessment. From the Colloquium it became clear that 'omics technologies are a valuable addition in some aspects of risk assessment of food and feed products and the environment, especially now that this technology is almost mature and stable. However, a consistent reporting framework for data collection, processing, interpretation, storage and curation should be further drawn up together with national and international organisations before 'omics technologies can be routinely used in risk assessment. For 'omics datasets in chemical and environmental risk assessments, the use of 'omics technologies alongside current toxicological or environmental risk assessment approaches is needed to re‐inforce confidence and expertise before implementation of these datasets as a standalone tool in risk assessment. Test cases could be worked out to enhance confidence in the use of 'omics datasets in risk assessment.
Betekenis van plantparasitaire nematoden voor Nederlands productiegrasland
Boer, Herman de - \ 2018
Wageningen : Wageningen Livestock Research (Wageningen Livestock Research rapport 1142) - 31
Selecting for changes in average “parity curve” pattern of litter size in Large White pigs
Sell-Kubiak, Ewa ; Knol, Egbert Frank ; Mulder, Herman Arend - \ 2018
Journal of Animal Breeding and Genetics (2018). - ISSN 0931-2668 - 15 p.
random regression - reproduction traits - sows - total number born - within-sow variation

This study aimed to analyse genetic background of variation in reproductive performance between parities of a sow and to investigate selection strategies to change the “parity curve”. Total number born (TNB) recorded in Large White sows was provided by Topigs Norsvin. Analysis with basic (BM) and random regression (RRM) models was done in ASReml 4.1. The BM included only a fixed “parity curve”, while RRM included 3rd order polynomials for additive genetic and permanent sow effects. Parameters from RRM were used in simulations in SelAction 2.1. Based on Akaike information criterion, RRM was a better model for TNB data. Genetic variance and heritability estimates of TNB from BM and RRM were increasing with parity from parity 2. Genetically, parity 1 is the most different from parities 7 to 10, whereas most similar to parities 2 and 3. This indicates presence of genetic variation to change the “parity curve”. Based on simulations, the selection to increase litter size in parity 1 only increases TNB in all parities, but does not change the observed shape of “parity curve”, whereas selection for increased TNB in parity 1 and reduced TNB in parity 5 decreases differences between parities, but also reduces overall TNB in all parities. Changing the “parity curve” will be difficult as the genetic and phenotypic relationships between the parities are hard to overcome even when selecting for one parity.

Suzuki-fruitvlieg is een overlever
Helsen, Herman - \ 2018
The qualified presumption of safety assessment and its role in EFSA risk evaluations : 15 years past
Herman, Lieve ; Chemaly, Marianne ; Cocconcelli, Pier Sandro ; Fernandez, Pablo ; Klein, Günter ; Peixe, Luisa ; Prieto, Miguel ; Querol, Amparo ; Suarez, Juan Evaristo ; Sundh, Ingvar ; Vlak, Just ; Correia, Sandra - \ 2018
FEMS Microbiology Letters 366 (2018)1. - ISSN 0378-1097

Microorganisms are intentionally added at different stages of the food and feed chain (food or feed additive, novel food or plant protection product) and are subjected to regulation and safety assessment by the European Food Safety Authority. Safety evaluation is based on application dossiers for market authorisation to the European Commission. The qualified presumption of safety (QPS) concept was developed in 20031 to provide a harmonised generic safety pre-appraisal of the above microorganisms. Unambiguously defined biological taxonomic units (TUs) are assessed for their body of knowledge, their safety and their end use. Identified safety concerns for a certain TU can be, where reasonable in number and not universally present, reflected as 'qualifications.' Strains belonging to TUs having QPS status may benefit of a fast track evaluation. The lowest TU for which the QPS status is granted is the species level for bacteria and yeasts and the family for viruses. The QPS concept is also applicable to genetically modified microorganisms used for production purposes. Based on the current body of knowledge and/or the ambiguous taxonomic position, some TUs, such as filamentous fungi, bacteriophages, Enterococcus faecium, Escherichia coli, Streptomyces spp. and Oomycetes, are not considered liable for QPS status.

Gene-editing nog niet de kip met gouden eieren
Bastiaansen, John ; Bovenhuis, Henk ; Mulder, Herman - \ 2018

Inge van Drie

Quantitative genetics of environmental variance and resilience: analyses in livestock and aquaculture populations
Mulder, Herman - \ 2018
IOWA STATE University
Quantitative genetics of environmental variance and resilience: analyses in livestock and aquaculture populations
Mulder, Herman - \ 2018
IOWA STATE University
Use of AMS data in dairy cattle breeding
Mulder, Herman - \ 2018
WP3 Bodem, teelt en plantbodem-management interacties grasland
Boer, Herman de - \ 2018
The Intrinsic Stability of Metal Ion Complexes with Nanoparticulate Fulvic Acids
Town, Raewyn M. ; Duval, Jérôme F.L. ; Leeuwen, Herman P. van - \ 2018
Environmental Science and Technology 52 (2018)20. - ISSN 0013-936X - p. 11682 - 11690.

The electrostatic contributions to metal ion binding by fulvic acids (FAs) are characterized in light of recent theoretical developments on description of the net charge density of soft nanoparticles. Under practical electrolyte concentrations, the radius of the small, highly charged soft nanoparticulate FAs is comparable to the electrostatic screening length and their electric potential profile has a bell shape that extends into the surrounding aqueous medium. Consequently, accumulation of counterions in the extraparticulate zone can be significant. By comparison of experimentally derived Boltzmann partitioning coefficients with those computed on the basis of (i) the structural FA particle charge and (ii) the potential profile for a nanoparticulate FA entity equilibrated with indifferent electrolyte, we identify the thickness of the extraparticulate counter charge accumulation shell in 1-1 and 2-1 electrolytes. The results point to the involvement of counterion condensation phenomena and call into question the approaches for modeling electrostatic contributions to ion binding that are invoked by popular equilibrium speciation codes. Overall, the electrostatic contributions to Cdaq2+ and Cuaq2+ association with FA are weaker than those previously found for much larger humic acids (HA). The intrinsic chemical binding strength of CdFA is comparable to that of CdHA, whereas CuFA complexes are weaker than CuHA ones.

A common genetic mechanism underlies morphological diversity in fruits and other plant organs
Wu, Shan ; Zhang, Biyao ; Keyhaninejad, Neda ; Rodríguez, Gustavo R. ; Kim, Hyun Jung ; Chakrabarti, Manohar ; Illa-Berenguer, Eudald ; Taitano, Nathan K. ; Gonzalo, M.J. ; Díaz, Aurora ; Pan, Yupeng ; Leisner, Courtney P. ; Halterman, Dennis ; Buell, C.R. ; Weng, Yiqun ; Jansky, Shelley H. ; Eck, Herman van; Willemsen, Johan ; Monforte, Antonio J. ; Meulia, Tea ; Knaap, Esther van der - \ 2018
Nature Communications 9 (2018)1. - ISSN 2041-1723

Shapes of edible plant organs vary dramatically among and within crop plants. To explain and ultimately employ this variation towards crop improvement, we determined the genetic, molecular and cellular bases of fruit shape diversity in tomato. Through positional cloning, protein interaction studies, and genome editing, we report that OVATE Family Proteins and TONNEAU1 Recruiting Motif proteins regulate cell division patterns in ovary development to alter final fruit shape. The physical interactions between the members of these two families are necessary for dynamic relocalization of the protein complexes to different cellular compartments when expressed in tobacco leaf cells. Together with data from other domesticated crops and model plant species, the protein interaction studies provide possible mechanistic insights into the regulation of morphological variation in plants and a framework that may apply to organ growth in all plant species.

The identification of allelic variation in potato
Willemsen, Johan - \ 2018
Wageningen University. Promotor(en): Richard Visser, co-promotor(en): Herman van Eck. - Wageningen : Wageningen University - ISBN 9789463435130 - 206
Zomersneeuw : Beelden op de Berg 11, Belmonte Arboretum Wageningen, 17/6 -23/9 | 2018
Wildschut, Flos ; Fresco, Louise ; Eijsackers, Herman ; Otten, Els ; Bos, René ten - \ 2018
Wageningen : Blauwdruk (Beelden op de Berg 11) - ISBN 9789492474216 - 78
Woelen van verdicht grasland op een zavelgrond en een zware kleigrond : Effecten op bodemstructuur, beworteling en productiviteit
Boer, Herman de; Deru, Joachim ; Eekeren, Nick van - \ 2018
Wageningen : Wageningen Livestock Research (Wageningen Livestock Research rapport 1038) - 25
Income intervention quick scan: productivity enhancement : Farmer Income Lab Intervention Quick Scan
Snel, Herman - \ 2018
Wageningen : Wageningen Centre for Development Innovation (Report / WCDI 18-036) - 22
This quick scan, commissioned by the Farmer Income Lab, is part of a wider research effort looking at, “What are the most effective actions that lead buyers can take to enable smallholder farmers in global supply chains to meaningfully increase their incomes?”. The quick scan provides an overview of the publicly available evidence on the impact of productivity enhancement measures have had on raising farmer income. Such subsidies have had little positive effect on farmer income, are not notably beneficial for women nor is this effect long-term. They have been applied at large scale. This quick scan is part of a series of 16, contributing to a synthesis report “What Works to Raise Farmer’s Income: a Landscape Review”.
Parameters for the collapse of turbulence in the stratified plane Couette flow
Hooijdonk, Ivo G.S. van; Clercx, Herman J.H. ; Ansorge, Cedrick ; Moene, Arnold F. ; Wiel, Bas J.H. van de - \ 2018
Journal of the Atmospheric Sciences 75 (2018)9. - ISSN 0022-4928 - p. 3211 - 3231.
Boundary conditions - Boundary layer - Numerical analysis/modeling - Turbulence

We perform direct numerical simulation of the Couette flow as a model for the stable boundary layer. The flow evolution is investigated for combinations of the (bulk) Reynolds number and the imposed surface buoyancy flux. First, we establish what the similarities and differences are between applying a fixed buoyancy difference (Dirichlet) and a fixed buoyancy flux (Neumann) as boundary conditions. Moreover, two distinct parameters were recently proposed for the turbulent-to-laminar transition: the Reynolds number based on the Obukhov length and the "shear capacity," a velocity-scale ratio based on the buoyancy flux maximum. We study how these parameters relate to each other and to the atmospheric boundary layer. The results show that in a weakly stratified equilibrium state, the flow statistics are virtually the same between the different types of boundary conditions. However, at stronger stratification and, more generally, in nonequilibrium conditions, the flow statistics do depend on the type of boundary condition imposed. In the case of Neumann boundary conditions, a clear sensitivity to the initial stratification strength is observed because of the existence of multiple equilibriums, while for Dirichlet boundary conditions, only one statistically steady turbulent equilibrium exists for a particular set of boundary conditions. As in previous studies, we find that when the imposed surface flux is larger than the maximum buoyancy flux, no turbulent steady state occurs. Analytical investigation and simulation data indicate that this maximum buoyancy flux converges for increasing Reynolds numbers, which suggests a possible extrapolation to the atmospheric case.

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