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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    Welkom bij de Kaskieswijzer: Wiki
    Boedijn, Alexander ; Franken, Geert ; Swinkels, G.L.A.M. ; Kempkes, F.L.K. - \ 2020
    Wageningen : Wageningen University & Research, BU Glastuinbouw
    De Kaskieswijzer is een interactief naslagwerk op het gebied van daglichtbenutting in de glastuinbouw. Om zonne-energie optimaal te kunnen benutten is veel onderzoek uitgevoerd naar factoren die de toetreding van licht in de kas bepalen. Deze factoren hebben onder andere betrekking op kasontwerp, kasconstructie, kasdekmateriaal en schermen. Het doel van de Kaskieswijzer is om deze kennis toegankelijk en interpreteerbaar te maken voor ondernemers binnen de glastuinbouwsector met plannen voor nieuwbouw of verbouw. Zodoende biedt de Kaskieswijzer ondersteuning tijdens het ontwerpproces.
    Greenhouse data experiment drip irrigation 2016
    Os, Erik van; Wipfler, Louise ; Beltman, Wim ; Boesten, Jos ; Hoogsteen, Martine ; Linden, Anton van der; Staaij, Marieke van der; Swinkels, Gert-Jan - \ 2020
    Wageningen University & Research
    Experiment - Greenhouse horticulture - Imidacloprid - Model validation - Plant protection products - Pymetrozine - Sweet pepper
    The 'Greenhouse data experiment drip irrigation 2016' file contains data gathered during the experiment as described in Wipfler et al. (2020), Testing of the Greenhouse Emission Model for application of plant protection products via drip irrigation. WENR report 3004. Climate parameters were collected from the Lets Grow database, these parameters include water supply, drain water flow, external rainwater intake, radiation outside (W/m2), realized temperature and relative humidity in greenhouse compartment.
    First Observation of a Spontaneously Matured Female European Eel (Anguilla anguilla)
    Palstra, A.P. ; Jéhannet, P. ; Swinkels, W. ; Heinsbroek, L.T.N. ; Lokman, P.M. ; Vesala, S. ; Tulonen, J. ; Lakka, T. ; Saukkonen, S. - \ 2020
    Scientific Reports 10 (2020)1. - ISSN 2045-2322

    This study reports on the first observation of a spontaneously matured female European eel. The 43-year-old eel, together with eleven other females, resided at an aquarium house since their capture in 2002 and stocking as glass eels in 1978. In June 2019, the girth of the belly of the female increased as a sign of oocyte maturation. The specimen had an estimated gonadosomatic index (GSI) of 47, only half of the oocytes were hydrated and matured, indicating that European eels are polycyclic batch spawners. The live eels of the cohort were still in the previtellogenic phase but their eye sizes were close to that of the matured eel. We hypothesize that substances released by other maturing and spawning fishes may have triggered puberty of the eel. This first observation, and the possibility of more eels maturing in the near future, provides a natural reference for the sexual maturation of the European eel.

    Testing recombinant gonadotropins for the propagation of European eel (Anguilla anguilla), pretreated by feminization, simulated migration and steroid implants
    Palstra, A.P. ; Giménez Nebot, I. ; Lokman, Mark ; Jéhannet, Pauline ; Swinkels, W. ; Heinsbroek, L.T.N. - \ 2019
    Hormonal induction of maturation in female anguillids - is there a future for the use of steroid implants?
    Lokman, Mark ; Thomson-Laing, G. ; Heinsbroek, L.T.N. ; Jéhannet, Pauline ; Swinkels, W. ; Palstra, A.P. ; Damsteegt, E.L. - \ 2019
    Kaskieswijzer wordt handige hulp bij keuze van kasdek. Tool geeft telers inzicht in voors en tegens van kasdekconcepten
    Swinkels, Gert-Jan - \ 2019
    Hydrogen bond guidance and aromatic stacking drive liquid-liquid phase separation of intrinsically disordered histidine-rich peptides
    Gabryelczyk, Bartosz ; Cai, Hao ; Shi, Xiangyan ; Sun, Yue ; Swinkels, Piet J.M. ; Salentinig, Stefan ; Pervushin, Konstantin ; Miserez, Ali - \ 2019
    Nature Communications 10 (2019)1. - ISSN 2041-1723

    Liquid-liquid phase separation (LLPS) of intrinsically disordered proteins (IDPs) is involved in both intracellular membraneless organelles and extracellular tissues. Despite growing understanding of LLPS, molecular-level mechanisms behind this process are still not fully established. Here, we use histidine-rich squid beak proteins (HBPs) as model IDPs to shed light on molecular interactions governing LLPS. We show that LLPS of HBPs is mediated though specific modular repeats. The morphology of separated phases (liquid-like versus hydrogels) correlates with the repeats’ hydrophobicity. Solution-state NMR indicates that LLPS is a multistep process initiated by deprotonation of histidine residues, followed by transient hydrogen bonding with tyrosine, and eventually by hydrophobic interactions. The microdroplets are stabilized by aromatic clustering of tyrosine residues exhibiting restricted molecular mobility in the nano-to-microsecond timescale according to solid-state NMR experiments. Our findings provide guidelines to rationally design pH-responsive peptides with LLPS ability for various applications, including bioinspired protocells and smart drug-delivery systems.

    The Plant Health Monitoring System of the EDEN ISS Space Greenhouse in Antarctica During the 2018 Experiment Phase
    Zeidler, Conrad ; Zabel, Paul ; Vrakking, Vincent ; Dorn, Markus ; Bamsey, Matthew ; Schubert, Daniel ; Ceriello, Antonio ; Fortezza, Raimondo ; Simone, Domenico De; Stanghellini, Cecilia ; Kempkes, Frank ; Meinen, Esther ; Mencarelli, Angelo ; Swinkels, Gert Jan ; Paul, Anna Lisa ; Ferl, Robert J. - \ 2019
    Frontiers in Plant Science 10 (2019). - ISSN 1664-462X - 13 p.
    The EDEN ISS project has the objective to test key technologies and processes for higher plant cultivation with a focus on their application to long duration spaceflight. A mobile plant production facility was designed and constructed by an international consortium and deployed to the German Antarctic Neumayer Station III. Future astronaut crews, even if well-trained and provided with detailed procedures, cannot be expected to have the competencies needed to deal with all situations that will arise during a mission. Future space crews, as they are today, will be supported by expert backrooms on the ground. For future space-based greenhouses, monitoring the crops and the plant growth system increases system reliability and decreases the crew time required to maintain them. The EDEN ISS greenhouse incorporates a Plant Health Monitoring System to provide remote support for plant status assessment and early detection of plant stress or disease. The EDEN ISS greenhouse has the capability to automatically capture and distribute images from its suite of 32 high-definition color cameras. Collected images are transferred over a satellite link to the EDEN ISS Mission Control Center in Bremen and to project participants worldwide. Upon reception, automatic processing software analyzes the images for anomalies, evaluates crop performance, and predicts the days remaining until harvest of each crop tray. If anomalies or sub-optimal performance is detected, the image analysis system generates automatic warnings to the agronomist team who then discuss, communicate, or implement countermeasure options. A select number of Dual Wavelength Spectral Imagers have also been integrated into the facility for plant health monitoring to detect potential plant stress before it can be seen on the images taken by the high-definition color cameras. These imagers and processing approaches are derived from traditional space-based imaging techniques but permit new discoveries to be made in a facility like the EDEN ISS greenhouse in which, essentially, every photon of input and output can be controlled and studied. This paper presents a description of the EDEN ISS Plant Health Monitoring System, basic image analyses, and a summary of the results from the initial year of Antarctic operations.
    Productivity of Nannochloropsis oceanica in an industrial closely spaced flat panel photobioreactor
    Norsker, N.H. ; Michiels, M. ; Slegers, P.M. ; Swinkels, G.L.A.M. ; Barbosa, M.J. ; Wijffels, R.H. - \ 2019
    Algal Research 43 (2019). - ISSN 2211-9264
    Algal growth rate was modeled from average irradiance and temperature. Indirect irradiation was estimated from actual horizontal irradiation. Photobioreactor productivity rate was modeled from irradiation and temperature. Photobioreactor productivity rate was measured from CO2-absorption.
    Ontwikkeling broekbossen
    Runhaar, J. ; Verdonschot, R.C.M. ; Swinkels, C. ; Lucassen, E.C.H.E.T. ; Loeb, R. ; Smolders, A.J.P. - \ 2019
    Wageningen : KNNV Publishing (Rapport / Vereniging van Bos-en Natuurterreineigenare nr. 2019/OBN227-BE) - 142
    Het doel van het Kennisnetwerk Ontwikkeling en Beheer Natuurkwaliteit (OBN) is het ontwikkelen, verspreiden en benutten van kennis voor terreinbeheerders over natuurherstel, Natura 2000, PAS, leefgebiedenbenadering en ontwikkeling van nieuwe natuur. In het kader van Natura 2000 worden in Europees perspectief zeldzame soorten en vegetatietypen in Nederland beschermd. Deze studie heeft zich gericht op voor beekdalen kenmerkende broekbossen, die vallen onder het habitatsubtype H91E0_C Vochtige alluviale bossen (beekbegeleidende bossen). Het gaat daarbij met name om door Zwarte els (Alnus glutinosa) gedomineerde broekbossen. De vraag die in deze studie centraal stond is welke invloed nutriëntenbeschikbaarheid heeft op vegetatie en fauna van broekbossen en daarmee op de ontwikkelingsmogelijkheden van deze bostypen op voormalige landbouwgronden in beekdalen. De nadruk in deze studie ligt op de nutriëntenhuishouding en op de invloed die voormalig landgebruik en overstroming via de nutriëntenhuishouding hebben op de soortenrijkdom in broekbossen. Daarnaast wordt ook uitgebreid aandacht besteed aan de invloed van de vegetatiestructuur op de soortensamenstelling van de macrofauna. Dit onderzoek bevat ook een experiment met het toedienen ijzerhoudend drinkwaterslib dat vrijkomt bij productie van drinkwater. Dit experiment had tot doel om na te gaan of toediening van dit slib ook in natte organische bodems een geschikte maatregel is om fosfaat te binden. De resultaten laten zien dat het mogelijk is de mobilisatie van fosfaat succesvol tegen te gaan door de toediening van ijzer- en kalkrijk slib. Dit onderdeel is mogelijk gemaakt door financiering en medewerking van Brabant Water. De rest van de conclusies en aanbevelingen leest u in hoofdstuk 7.
    Self-assembly of oppositely charged polyelectrolyte block copolymers containing short thermoresponsive blocks
    Hees, I.A. van; Swinkels, P.J.M. ; Fokkink, R.G. ; Velders, A.H. ; Voets, I.K. ; Gucht, J. van der; Kamperman, M. - \ 2019
    Polymer Chemistry 10 (2019)23. - ISSN 1759-9954 - p. 3127 - 3134.

    The assembly of oppositely charged block copolymers, containing small thermoresponsive moieties, was investigated as a function of salt concentration and temperature. Aqueous solutions of poly-[N-isopropylacrylamide]-b-poly[dimethylaminoethyl methacrylate] (NIPAM44-b-DMAEMA216) and PNIPAM-b-poly[acrylic acid]-b-PNIPAM (NIPAM35-b-AA200-b-NIPAM35) were mixed in equal charge stoichiometry, and analysed by light scattering (LS), NMR spectroscopy and small angle X-ray scattering (SAXS). At room temperature, two different micelle morphologies were found at different salt concentrations. At NaCl concentrations below 0.75 M, complex coacervate core micelles (C3M) with a PNIPAM corona were formed as a result of interpolyelectrolyte complexation. At NaCl concentrations exceeding 0.75 M, the C3M micelles inverted into PNIPAM cored micelles (PCM), containing a water soluble polyelectrolyte corona. This behavior is ascribed to the salt concentration dependence of both the lower critical solution temperature (LCST) of PNIPAM, and the complex coacervation. Above 0.75 M NaCl, the PNIPAM blocks are insoluble in water at room temperature, while complexation between the polyelectrolytes is prevented because of charge screening by the salt. Upon increasing the temperature, both types of micelles display a cloud point temperature (Tcp), despite the small thermoresponsive blocks, and aggregate into hydrogels. These hydrogels consist of a complexed polyelectrolyte matrix with microphase separated PNIPAM domains. Controlling the morphology and aggregation of temperature sensitive polyelectrolytes can be an important tool for drug delivery systems, or the application and hardening of underwater glues.

    Author Correction: Rapid de novo assembly of the European eel genome from nanopore sequencing reads : Rapid de novo assembly of the European eel genome from nanopore sequencing reads (Scientific Reports, (2017), 7, 1, (7213), 10.1038/s41598-017-07650-6)
    Jansen, Hans J. ; Liem, Michael ; Jong-Raadsen, Susanne A. ; Dufour, Sylvie ; Weltzien, Finn Arne ; Swinkels, William ; Koelewijn, Alex ; Palstra, Arjan P. ; Pelster, Bernd ; Spaink, Herman P. ; Thillart, Guido E. van den; Dirks, Ron P. ; Henkel, Christiaan V. - \ 2019
    Scientific Reports 9 (2019). - ISSN 2045-2322

    This Article contains errors. Since the publication of this Article, the website hosting the assembly data has become inactive. The data has now been re-deposited in the DataverseNO repository. As such, the corrected Data Availability section should be as follows. Data Availability The nanopore sequencing data are available in the European Nucleotide Archive (accession number PRJEB20018). The Racon- and Pilon-corrected candidate assembly is available at https://doi.org/10.18710/NMTGUN. The TULIP-scripts are available at https://github.com/Generade-nl.

    Nieuwe simulatietool ontwikkeld voor praktijk en onderwijs. Katalysator voor uitrol Het Nieuwe Telen
    Swinkels, G.L.A.M. ; Helm, Frank van der; Boedijn, Alexander - \ 2019
    A mechanistic model for studying the initiation of anguillid vitellogenesis by comparing the European eel (Anguilla anguilla) and the shortfinned eel (A. australis)
    Jéhannet, P. ; Kruijt, L. ; Damsteegt, E.L. ; Swinkels, W. ; Heinsbroek, L.T.N. ; Lokman, P.M. ; Palstra, A.P. - \ 2019
    General and Comparative Endocrinology 279 (2019). - ISSN 0016-6480 - p. 129 - 138.
    Brain-pituitary-gonad axis - Dopaminergic inhibition - Eel reproduction - Growth hormone - Sex steroids - Silvering

    An inverse relation exists between the maturation stage at the start of the oceanic reproductive migration and the migration distance to the spawning grounds for the various eel species. The European eel Anguilla anguilla migrates up to 5–6000 km and leaves in a previtellogenic state. The shortfinned eel A. australis migrates 2–4000 km and leaves in an early vitellogenic state. In this study, we compared the early pubertal events in European silver eels with those in silver shortfinned eels to gain insights into the initiation of vitellogenesis. Immediately after being caught, yellow and silver eels of both species were measured and sampled for blood and tissues. Eye index (EI), gonadosomatic index (GSI) and hepatosomatic index (HSI) were calculated. Plasma 11-ketotestosterone (11-KT) and 17β-estradiol (E2) levels were measured by radioimmunoassay. Pituitary, liver and ovaries were dissected for quantitative real-time PCR analyses (pituitary dopamine 2b receptor d2br, gonadotropin-releasing hormone receptors 1 and 2 gnrhr1 and gnrhr2, growth hormone gh and follicle-stimulating hormone-β fshb; liver estrogen receptor 1 esr1; gonad follicle-stimulating hormone receptor fshr, androgen receptors α and β ara and arb, vitellogenin receptor vtgr and P450 aromatase cyp19). Silver eels of both species showed a drop in pituitary gh expression, progressing gonadal development (GSI of ∼1.5 in European eels and ∼3.0 in shortfinned eels) and steroid level increases. In shortfinned eels, but not European eels, expression of fshb, gnrhr1 and gnrhr2, and d2br in the pituitary was up-regulated in the silver-stage as compared to yellow-stage females, as was expression of fshr, ara and arb in the ovaries. Expression of esr1 in European eels remained low while esr1 expression was up-regulated over 100-fold in silver shortfinned eels. The mechanistic model for anguillid vitellogenesis that we present suggests a first step that involves a drop in Gh and a second step that involves Fsh increase when switching in the life history trade-off from growth to reproduction. The drop in Gh is associated with gonadal development and plasma steroid increase but precedes brain-pituitary-gonad axis (BPG) activation. The Fsh increase marks BPG activation and increased sensitivity of the liver to estrogenic stimulation, but also an increase in D2br-mediated dopaminergic signaling to the pituitary.

    KASSIM : Wiki
    Swinkels, G.L.A.M. ; Boedijn, Alexander - \ 2019
    Groen Kennisnet
    Kassim is ontwikkeld door Wageningen University & Research business unit Glastuinbouw en Wageningen Environmental Research. Het project is gefinancierd door Wageningen UR Knowledge Sharing (WURKS), het ministerie van Economische Zaken en Klimaat, en de Stichting Programmafonds Glastuinbouw in het kader van het onderzoeksprogramma Kas als Energiebron.
    Increase of light transmission of a Venlo-type greenhouse during winter by 10% : A design study
    Kempkes, F. ; Swinkels, G.J. ; Hemming, S. - \ 2018
    Acta Horticulturae 1227 (2018). - ISSN 0567-7572 - p. 133 - 140.
    Coatings - Covering material - Diffuse light - Energy efficiency - Greenhouse design

    During winter and at higher latitudes, natural light is the limiting factor for crop growth in greenhouses. The design of Venlo-type greenhouses in the Netherlands has not changed for many years, although recent developments of diffuse glass with anti-reflective coatings might necessitate alteration of the roof design for maximized light transmissivity during winter. Light transmissivity of a greenhouse, in general, is influenced by roof slope, gutter orientation, roof shape, dimensions, position and reflectivity of construction elements, screen installation, position and transmissivity of screen material, transmissivity and light-scattering pattern of the covering and the effect of condensation on the inner side of the covering material or screen. Using the ray-tracing model RAYPRO (Swinkels et al., 2001), the integral effect of all individual and combined measures on light transmission of the greenhouse at crop level was calculated. The results show that it is possible to increase light transmission by more than 10% with a novel greenhouse roof concept. Results of ray-tracing calculations for individual and combined measures are described in this paper. After identifying the roof concept with the theoretically highest increase in light transmissivity during winter in the Netherlands, economic feasibility and all constructional restrictions were taken into account in close cooperation with industrial partners. This has led to a novel roof design that was built as a demonstration greenhouse on a scale of 500 m2 in summer 2016 at Wageningen University & Research station in Bleiswijk. This “winterlight greenhouse” had resulted in a re-design of the traditional Venlo-type greenhouse roof, covering and screen.

    Remote monitoring of crop welfare and support to astronaut’s crop handling
    Kempkes, F.L.K. ; Meinen, E. ; Mencarelli, A. ; Swinkels, G.L.A.M. ; Stanghellini, C. - \ 2018
    Multi-label building functions classification from ground pictures using convolutional neural networks
    Srivastava, S. ; Vargas Muñoz, John E. ; Swinkels, David ; Tuia, D. - \ 2018
    In: Proceedings of the 2nd ACM SIGSPATIAL International Workshop on AI for Geographic Knowledge Discovery. - New York : ACM - ISBN 9781450360364 - p. 43 - 46.
    We approach the problem of multi building function classification for buildings from the city of Amsterdam using a collection of Google Street View (GSV) pictures acquired at multiple zoom levels (field of views, FoV) and the corresponding governmental census data per building. Since buildings can have multiple usages, we cast the problem as multilabel classification task. To do so, we trained a CNN model end-to-end with the task of predicting multiple co-occurring building function classes per building. We fuse the individual features of three FoVs by using volumetric stacking. Our proposed model outperforms baseline CNN models that use either single or multiple FoVs.
    Researchers “grow” model of ideal plant in simulated greenhouse: 3D modelling rapidly gaining ground
    Visser, P.H.B. de; Swinkels, G.L.A.M. - \ 2018
    First grower sheds more light on anti-condensation coating: Light transmittance wet roof can be measured objectively
    Swinkels, G.L.A.M. - \ 2018
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