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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    Records 1 - 20 / 202

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    Detection of Ralstonia pseudosolanacearum in drain water based on concentration, enrichment and the use of a duplex TaqMan PCR test
    Sedighian, Nasim ; Mendes, O. ; Poleij, L.M. ; Bonants, P.J.M. ; Wolf, J.M. van der - \ 2020
    EPPO Bulletin (2020). - ISSN 0250-8052
    The Ralstonia solanacearum species complex (RSSC) can cause bacterial wilt in a wide variety of plant species, including a number of ornamental glasshouse crops. Recently in Europe, ornamental rose plants for the production of cut flowers and propagation materials have been strongly affected by Ralstonia pseudosolanacearum , phylotype I, biovar 3. To test for the presence of the pathogen in the glasshouse, sampling of water from a drainage gutter or well may be an efficient strategy since it is known that RSSC can be released from infected root systems in the water. A protocol was developed to detect low densities of R. pseudosolanacearum in drain water collected from rose growers. Drain water was filtered through a bacterial filter, the filtrate was collected and target bacteria enriched for 48 h in Semi‐selective Medium South Africa (SMSA) broth supplemented with sterilized tomato plant extracts. DNA extracted from the enrichment broth was analysed using a TaqMan test in a duplex format, based on specific egl sequences of RSSC and the use of an extraction and amplification control. The optimized protocol had a detection level of ≤1–10 colony forming units of R. pseudosolanacearum in drain water.
    Nederlands Xylella-onderzoek leidt tot meer kennis
    Bonants, P.J.M. ; Wolf, J.M. van der - \ 2019
    De Boomkwekerij 24 (2019). - ISSN 0923-2443 - p. 12 - 13.
    Wageningen Plant Research heeft de afgelopen jaren onderzoek verricht naar Xylella fastidiosa. Zo is een aantal bomen en planten kunstmatig besmet om te zien in hoeverre de bacterie zich daain kan vermenigvuldigen en verspreiden.
    Integrative pangenome analysis of the Pectobacterium genus
    Jonkheer, Eef ; Brankovics, Balázs ; Houwers, I.M. ; Wolf, J.M. van der; Bonants, P.J.M. ; Vreeburg, R.A.M. ; Sheikhizadeh Anari, S. ; Ridder, D. de; Smit, S. ; Lee, T.A.J. van der - \ 2019
    Comparative genomics of chytrid fungi reveal insights into the obligate biotrophic and pathogenic lifestyle of Synchytrium endobioticum
    Vossenberg, Bart T.L.H. van de; Warris, Sven ; Nguyen, Hai D.T. ; Gent-Pelzer, Marga P.E. van; Joly, David L. ; Geest, Henri C. van de; Bonants, Peter J.M. ; Smith, Donna S. ; Lévesque, André C. ; Lee, Theo A.J. van der - \ 2019
    Scientific Reports 9 (2019)1. - ISSN 2045-2322

    Synchytrium endobioticum is an obligate biotrophic soilborne Chytridiomycota (chytrid) species that causes potato wart disease, and represents the most basal lineage among the fungal plant pathogens. We have chosen a functional genomics approach exploiting knowledge acquired from other fungal taxa and compared this to several saprobic and pathogenic chytrid species. Observations linked to obligate biotrophy, genome plasticity and pathogenicity are reported. Essential purine pathway genes were found uniquely absent in S. endobioticum, suggesting that it relies on scavenging guanine from its host for survival. The small gene-dense and intron-rich chytrid genomes were not protected for genome duplications by repeat-induced point mutation. Both pathogenic chytrids Batrachochytrium dendrobatidis and S. endobioticum contained the largest amounts of repeats, and we identified S. endobioticum specific candidate effectors that are associated with repeat-rich regions. These candidate effectors share a highly conserved motif, and show isolate specific duplications. A reduced set of cell wall degrading enzymes, and LysM protein expansions were found in S. endobioticum, which may prevent triggering plant defense responses. Our study underlines the high diversity in chytrids compared to the well-studied Ascomycota and Basidiomycota, reflects characteristic biological differences between the phyla, and shows commonalities in genomic features among pathogenic fungi.

    Development and evaluation of a triplex TaqMan assay and Next Generation Sequence Analysis for improved detection of Xylella in plant material
    Bonants, P.J.M. ; Griekspoor, Y. ; Houwers, I.M. ; Krijger, M.C. ; Zouwen, P.S. van der; Lee, T.A.J. van der; Wolf, J.M. van der - \ 2019
    Plant Disease 103 (2019)4. - ISSN 0191-2917 - 36 p.
    Xylella fastidiosa is a heterogenous gram-negative bacterial plant pathogen with a wide host range covering over 300 plant species. Since 2013, in Europe, the presence of the pathogen is increasing in a part of the Mediterranean area, but causes in particular severe disease problems in olive orchards in the Southern part of Italy. Various subspecies of the pathogen were also diagnosed in natural outbreaks and intercepted ornamental plants in Europe, among them Olea europaea, Coffea arabica and Nerium oleander. The host range of the pathogen can vary, depending on the subspecies and even the strain. The availability of fast and reliable diagnostic tools are indispensable in management strategies to control diseases caused by X. fastidiosa. To improve the reliability of the TaqMan assay, currently widely used in surveys, a triplex TaqMan assay was developed in which two specific and sensitive TaqMan assays, previously designed for X. fastidiosa, were combined with an internal control. The triplex assay exhibited the same diagnostic sensitivity as the simplex assays. In addition, the usefulness of a metagenomic approach using next generation sequencing (NGS) was demonstrated, in which total DNA extracted from plant material was sequenced. DNA extracts from plant material free of X. fastidiosa, from artificially inoculated hosts plants or from naturally infected plants sampled in France, Spain and Italy, or intercepted in Austria and The Netherlands, were analysed for the presence of X. fastidiosa using the metagenomic approach. In all samples, even in samples with a low infection level, but not in the pathogen-free samples, DNA reads were detected specific for X. fastidiosa. In most cases, the pathogen could be identified up to the subspecies level and for one sample even the whole genome could be assembled and the sequence type could be determined. All results of NGS analysed samples were confirmed with the triplex TaqMan PCR and LAMP.
    Pangenome analysis and its application on Pectobacterium
    Jonkheer, Eef ; Smit, S. ; Ridder, D. de; Brankovics, Balázs ; Houwers, I.M. ; Wolf, J.M. van der; Bonants, P.J.M. ; Vreeburg, R.A.M. ; Lee, T.A.J. van der - \ 2018
    Use of whole genome sequencing data in the taxonomy and diagnostics of plant pathogenic Ralstonia species.
    Kurm, V. ; Mendes, O. ; Bonants, P.J.M. ; Wolf, J.M. van der; Coipan, E.C. ; Houwers, I.M. ; Waalwijk, C. - \ 2018
    KNPV Werkgroep Phytobacteriën
    Towards improved methods for detection of Xylella fastidiosa in plant material using triplex TaqMan PCR and NGS analysis.
    Bonants, Peter - \ 2018
    Innovative detection methods to support plant health diagnostics.
    Bonants, Peter - \ 2018
    Xylella-onderzoek toont nieuwste ontwikkelingen
    Bonants, P.J.M. ; Bakker, Daniel ; Bergsma-Vlami, M. ; Schenk, M. - \ 2018
    De Boomkwekerij (2018)8. - ISSN 0923-2443 - p. 16 - 17.
    Eind 2017 kwamen meer dan 250 onderzoekers uit de hele wereld bij elkaar in het Spaanse Palma de Mallorca om de voortgang van het onderzoek aan Xylella fasridiosa te bespreken. Experts presenteerde de nieuwste wetenschappelijke ontwikkelingen.
    Towards improved methods for detection of Xylella fastidiosa in plant material using triplex TaqMan PCR and NGS analysis
    Bonants, P.J.M. ; Griekspoor, Y. ; Houwers, I.M. ; Krijger, M.C. ; Zouwen, P.S. van der; Lee, T.A.J. van der; Wolf, J.M. van der - \ 2018
    Innovative detection methods to support plant health diagnostics
    Bonants, P.J.M. ; Houwers, I.M. ; Dullemans, A.M. ; Griekspoor, Y. ; Mendes, O. ; Gent-Pelzer, M.P.E. van; Vlugt, R.A.A. van der; Bergervoet, J.H.W. ; Schoen, C.D. ; Wolf, J.M. van der; Lee, T.A.J. van der - \ 2018
    Werkgroep Oömyceten : Doorstart
    Bonants, P.J.M. - \ 2018
    Gewasbescherming 49 (2018)1. - ISSN 0166-6495 - p. 18 - 18.
    Jaarverslagen KNPV-Werkgroepen over 2017
    Survival of Phytophthora cinnamomi and Fusarium verticillioides in commercial potting substrates for ornamental plants
    Puértolas, Alexandra ; Boa, Eric ; Bonants, Peter J.M. ; Woodward, Steve - \ 2018
    Journal of Phytopathology 166 (2018)7-8. - ISSN 0931-1785 - p. 484 - 493.
    Fusarium - Ornamental plants - Peat - Peat-free - Phytophthora - Potting substrates - Survival
    Live plants, particularly when accompanied by soil or potting substrates, are considered the main pathway for international spread of plant pathogens. Modern, rapid shipping technologies for international plant trade increase the probability of plant pathogen survival during transport and the subsequent chances of disease outbreaks in new locations. The survival of two model pathogens, an Oomycete, Phytophthora cinnamomi, and a filamentous fungus, Fusarium verticillioides, was studied in two different commercial potting substrates (peat and peat-free) under glasshouse conditions in the absence of a plant host. Survival rates were analysed at 2, 7, 12 and 17 months after substrate inoculation. Fusarium verticillioides had the longest survival rate, and was still present at 17 months. In contrast, P. cinnamomi survived up to 7 months but was not recovered after 12 or 17 months. There was no significant difference in the number of colony-forming units (CFUs) of either pathogen in the two substrates, except at 2 months, when higher numbers were recovered from peat substrates.
    The use of Next Generation Sequence Technolgy to evaluate the presence of plant pathogens in tomato seeds : What’s in a Pipeline ?
    Bonants, P.J.M. ; Dullemans, A.M. ; Houwers, I.M. ; Verstappen, E.C.P. ; Lee, T.A.J. van der - \ 2017
    Driejarig onderzoek Ralstonia gestart
    Bonants, Peter - \ 2017

    Onlangs is het startsein gegeven voor een driejarig onderzoek gericht op Ralstonia solanacearum (Rsol). Rsol is een quarantaine bacterie die verwelkingsziekte kan veroorzaken in een breed scala aan economisch belangrijke gewassen, waaronder aardappel, tomaat en anthurium.

    NGS-test veelbelovend voor testen van uitgangsmateriaal
    Bonants, Peter ; Lee, Theo van der - \ 2017

    De NGS-test kan meerdere ziektekiemen tegelijk opsporen in uitgangsmateriaal. Dat is een voordeel ten opzichte van de veelgebruikte PCR-test. NGS is een veelbelovende techniek, blijkt uit onderzoek.

    Ontwerp, constructie en karakterisatie van een multi-trofisch microbieel consortium als weerstand tegen R. solanacearum uit roos.
    Bonants, Peter - \ 2017
    Preventie van Ralstonia solanacearum in uitbraken in de Nederlandse land- en tuinbouw.
    Bonants, Peter - \ 2017
    Mogelijkheden voor Detectie & Diagnostiek.
    Bonants, Peter - \ 2017
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