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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    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.
    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 - \ 2018
    Anaerobe 49 (2018). - ISSN 1075-9964 - p. 71 - 77.
    Animal botulism - Clostridium botulinum group III - Phage - Plasmid
    Clostridium botulinum group III is mainly responsible for botulism in animals. It could lead to high animal mortality rates and, therefore, represents a major environmental and economic concern. Strains of this group harbor the botulinum toxin locus on an unstable bacteriophage. Since the release of the first complete C. botulinum group III genome sequence (strain BKT015925), strains have been found to contain others mobile elements encoding for toxin components. In this study, seven assays targeting toxin genes present on the genetic mobile elements of C. botulinum group III were developed with the objective to better characterize C. botulinum group III strains. The investigation of 110 C. botulinum group III strains and 519 naturally contaminated samples collected during botulism outbreaks in Europe showed alpha-toxin and C2-I/C2-II markers to be systematically associated with type C/D bont-positive samples, which may indicate an important role of these elements in the pathogenicity mechanisms. On the contrary, bont type D/C strains and the related positive samples appeared to contain almost none of the markers tested. Interestingly, 31 bont-negative samples collected on farms after a botulism outbreak revealed to be positive for some of the genetic mobile elements tested. This suggests loss of the bont phage, either in farm environment after the outbreak or during laboratory handling.
    Molucular gene profiling of Clostridium botulinum group III and their detection in naturally contaminated samples originating from various European countries
    Woudstra, C. ; LeMarechal, C. ; Souillard, R. ; Bäyon-Auboyer, M.H. ; Anniballi, F. ; Auricchio, B. ; Medici, D. De; Bano, L. ; Koene, M.G.J. ; Sansonetti, M.H. ; Hansbauer, E.M. ; Desoutter, D. ; Dorner, M.B. ; Fach, P. ; Dorner, B.G. - \ 2015
    Applied and Environmental Microbiology 81 (2015). - ISSN 0099-2240 - p. 2495 - 2505.
    We report the development of real-time PCR assays for genotyping Clostridium botulinum group III targeting the newly defined C. novyi sensu lato group; the nontoxic nonhemagglutinin (NTNH)-encoding gene ntnh; the botulinum neurotoxin (BoNT)-encoding genes bont/C, bont/C/D, bont/D, and bont/D/C; and the flagellin (fliC) gene. The genetic diversity of fliC among C. botulinum group III strains resulted in the definition of five major subgroups named fliC-I to fliC-V. Investigation of fliC subtypes in 560 samples, with various European origins, showed that fliC-I was predominant and found exclusively in samples contaminated by C. botulinum type C/D, fliC-II was rarely detected, no sample was recorded as fliC-III or fliC-V, and only C. botulinum type D/C samples tested positive for fliC-IV. The lack of genetic diversity of the flagellin gene of C. botulinum type C/D would support a clonal spread of type C/D strains in different geographical areas. fliC-I to fliC-III are genetically related (87% to 92% sequence identity), whereas fliC-IV from C. botulinum type D/C is more genetically distant from the other fliC types (with only 50% sequence identity). These findings suggest fliC-I to fliC-III have evolved in a common environment and support a different genetic evolution for fliC-IV. A combination of the C. novyi sensu lato, ntnh, bont, and fliC PCR assays developed in this study allowed better characterization of C. botulinum group III and showed the group to be less genetically diverse than C. botulinum groups I and II, supporting a slow genetic evolution of the strains belonging to C. botulinum group III.
    Studentencharettes : een magic toolbox
    Timmermans, W. ; Koolen, A. ; Slijkhuis, J. ; Dool, J.T. van den; Dorp, D. van; Goorbergh, F. van den; Groenhuizen, P. ; Linde, D.J. van der; Noortman, A. ; Rurup, F. ; Ulijn, J. ; Woudstra, A. ; Yilmaz, T. - \ 2015
    Velp : Hogeschool van Hall Larenstein (Planning by surprise ) - ISBN 9789068240528 - 58 p.
    hoger onderwijs - studentenparticipatie - onderzoeksprojecten - lichamelijke ontwikkeling - higher education - student participation - research projects - physical development
    Learning by Practice, High-Pressure Student Ateliers
    Timmermans, W. ; Cilliers, J. ; Garcia, A. ; Koolen, A. ; Woudstra, A. ; Dijk, T. van - \ 2014
    In: The Design Charette: Ways to envision sustainable futures / Roggema, R., Dordrecht : Springer Science + Business Media - ISBN 9789400770317 - p. 279 - 293.
    Two international and interdisciplinary high pressure student ateliers have been done and evaluated, one to explore possible future scenario’s for Strofylia (Greece) as requested by local and regional authorities and stakeholders, the other to put urban agriculture on the Lugo (Galicia, Spain) agenda. Aims of the ateliers have been to create a student learning environment in practice and make use of the expected conceptual flexibility and creativity of the students to come up with unexpected ideas. We have used interviews to evaluate the ateliers. The ateliers provide a rich learning by practice environment and offer new perspectives to practitioners and policy makers. Not much study has been carried out on high-pressure student ateliers in land use planning and landscape architecture. An outline is presented for a more thorough study of this type of ateliers to understand advantages and shortcomings of different atelier approaches.
    Management of animal botulism outbreaks: from clinical suspicion to practical countermeasures to prevent or minimize outbreaks
    Anniballi, F. ; Fiore, A. ; Löfström, Ch. ; Skarin, H. ; Auricchio, B. ; Woudstra, C. ; Bano, L. ; Segerman, B. ; Koene, M.G.J. - \ 2013
    Biosecurity and Bioterrorism: biodefense strategy, practice and science 11 (2013)S1. - ISSN 1538-7135 - p. S191 - S199.
    real-time pcr - clostridium-botulinum - c botulism - avian botulism - neurotoxin complex - wound botulism - group-iii - cattle - toxin - diagnosis
    Botulism is a severe neuroparalytic disease that affects humans, all warm-blooded animals, and some fishes. The disease is caused by exposure to toxins produced by Clostridium botulinum and other botulinum toxin–producing clostridia. Botulism in animals represents a severe environmental and economic concern because of its high mortality rate. Moreover, meat or other products from affected animals entering the food chain may result in a public health problem. To this end, early diagnosis is crucial to define and apply appropriate veterinary public health measures. Clinical diagnosis is based on clinical findings eliminating other causes of neuromuscular disorders and on the absence of internal lesions observed during postmortem examination. Since clinical signs alone are often insufficient to make a definitive diagnosis, laboratory confirmation is required. Botulinum antitoxin administration and supportive therapies are used to treat sick animals. Once the diagnosis has been made, euthanasia is frequently advisable. Vaccine administration is subject to health authorities' permission, and it is restricted to a small number of animal species. Several measures can be adopted to prevent or minimize outbreaks. In this article we outline all phases of management of animal botulism outbreaks occurring in wet wild birds, poultry, cattle, horses, and fur farm animals.
    Animal Botulism Outcomes in the AniBioThreat Project. Biosecur. Bioterror
    Woudstra, C. ; Tevell Aberg, A. ; Skarin, H. ; Anniballi, F. ; Medici, D. De; Bano, L. ; Koene, M.G.J. ; Löfström, Ch. ; Hansen, T. ; Hedeland, M. ; Fach, P. - \ 2013
    Biosecurity and Bioterrorism: biodefense strategy, practice and science 11 (2013)Suppl. 1. - ISSN 1538-7135 - p. S177 - S182.
    real-time pcr - polymerase-chain-reaction - neurotoxin-producing clostridia - mass-spectrometry - quantitative detection - bovine samples - wound botulism - sybr green - group-iii - types c
    Botulism disease in both humans and animals is a worldwide concern. Botulinum neurotoxins produced by Clostridium botulinum and other Clostridium species are the most potent biological substances known and are responsible for flaccid paralysis leading to a high mortality rate. Clostridium botulinum and botulinum neurotoxins are considered potential weapons for bioterrorism and have been included in the Australia Group List of Biological Agents. In 2010 the European Commission (DG Justice, Freedom and Security) funded a 3-year project named AniBioThreat to improve the EU's capacity to counter animal bioterrorism threats. A detection portfolio with screening methods for botulism agents and incidents was needed to improve tracking and tracing of accidental and deliberate contamination of the feed and food chain with botulinum neurotoxins and other Clostridia. The complexity of this threat required acquiring new genetic information to better understand the diversity of these Clostridia and develop detection methods targeting both highly specific genetic markers of these Clostridia and the neurotoxins they are able to produce. Several European institutes participating in the AniBioThreat project collaborated on this program to achieve these objectives. Their scientific developments are discussed here.
    Validation of a real-time PCR based method for detection of Clostridium botulinum types C, D and their mosaic variants C-D and D-C in a multicenter collaborative trial
    Woudstra, C. ; Skarin, H. ; Anniballi, F. ; Auricchio, B. ; Medici, D. De; Bano, L. ; Drigo, I. ; Hansen, T. ; Löfström, Ch. ; Hamidjaja, R. ; Rotterdam, B. van; Koene, M.G.J. - \ 2013
    Anaerobe 22 (2013). - ISSN 1075-9964 - p. 31 - 37.
    quantitative detection - clinical-samples - toxin - gene - neurotoxins - strains - food
    Two real-time PCR arrays based on the GeneDisc(®) cycler platform (Pall-GeneDisc Technologies) were evaluated in a multicenter collaborative trial for their capacity to specifically detect and discriminate Clostridium botulinum types C, D and their mosaic variants C-D and D-C that are associated with avian and mammalian botulism. The GeneDisc(®) arrays developed as part of the DG Home funded European project 'AnibioThreat' were highly sensitive and specific when tested on pure isolates and naturally contaminated samples (mostly clinical specimen from avian origin). Results of the multicenter collaborative trial involving eight laboratories in five European Countries (two laboratories in France, Italy and The Netherlands, one laboratory in Denmark and Sweden), using DNA extracts issued from 33 pure isolates and 48 naturally contaminated samples associated with animal botulism cases, demonstrated the robustness of these tests. Results showed a concordance among the eight laboratories of 99.4%-100% for both arrays. The reproducibility of the tests was high with a relative standard deviation ranging from 1.1% to 7.1%. Considering the high level of agreement achieved between the laboratories these PCR arrays constitute robust and suitable tools for rapid detection of C. botulinum types C, D and mosaic types C-D and D-C. These are the first tests for C. botulinum C and D that have been evaluated in a European multicenter collaborative trial.
    The Workshop on Animal Botulism in Europe
    Skarin, H. ; Tevell Aberg, A. ; Woudstra, C. ; Hansen, T. ; Löfström, Ch. ; Koene, M.G.J. ; Bano, L. ; Hedeland, M. ; Anniballi, F. ; Medici, D. De; Olsson Engvall, E. - \ 2013
    Biosecurity and Bioterrorism: biodefense strategy, practice and science 11 (2013)S1. - ISSN 1538-7135 - p. S183 - S190.
    clostridium-botulinum - endopep-ms - neurotoxins - cattle - mouse
    A workshop on animal botulism was held in Uppsala, Sweden, in June 2012. Its purpose was to explore the current status of the disease in Europe by gathering the European experts in animal botulism and to raise awareness of the disease among veterinarians and others involved in biopreparedness. Animal botulism is underreported and underdiagnosed, but an increasing number of reports, as well as the information gathered from this workshop, show that it is an emerging problem in Europe. The workshop was divided into 4 sessions: animal botulism in Europe, the bacteria behind the disease, detection and diagnostics, and European collaboration and surveillance. An electronic survey was conducted before the workshop to identify the 3 most needed discussion points, which were: prevention, preparedness and outbreak response; detection and diagnostics; and European collaboration and surveillance. The main conclusions drawn from these discussions were that there is an urgent need to replace the mouse bioassay for botulinum toxin detection with an in vitro test and that there is a need for a European network to function as a reference laboratory, which could also organize a European supply of botulinum antitoxin and vaccines. The foundation of such a network was discussed, and the proposals are presented here along with the outcome of discussions and a summary of the workshop itself.
    Detection of Clostridium botulinum types C, D, and mosaic types C-D and D-C using GeneDisc real-time PCR array: Development and evaluation through 8 European labatories
    Woudstra, C. ; Fach, P. ; Lindberg, A. ; Farsang, A. ; Rotterdam, B. van; Segerman, B. ; Auricchio, B. ; Löfström, Ch. ; Olsson Engvall, E. ; Anniballi, F. ; Koene, M.G.J. - \ 2012
    Neurotoxin gene profiling of Clostridium botulinum types C and D gathered from different countries within Europe
    Woudstra, C. ; Skarin, A. ; Anniballi, F. ; Fenicia, F. ; Bano, L. ; Drigo, I. ; Koene, M.G.J. ; Bäyon-Auboyer, M.H. ; Buffereau, J.P. ; Medici, D. ; Fach, P. - \ 2012
    Applied and Environmental Microbiology 78 (2012)9. - ISSN 0099-2240 - p. 3120 - 3127.
    real-time pcr - polymerase-chain-reaction - wound botulism - quantitative detection - bovine samples - cattle herds - alpha-toxin - outbreak - identification - diagnostics
    Clostridium botulinum types C and D, as well as their mosaic variants C-D and D-C, are associated with avian and mammalian botulism. This study reports on the development of low-density macroarrays based on the GeneDisc cycler platform (Pall-GeneDisc Technologies) applied to the simultaneous detection of the C. botulinum subtypes C, C-D, D, and D-C. The limit of detection of the PCR assays was 38 fg of total DNA, corresponding to 15 genome copies. Artificially contaminated samples of cecum showed a limit of detection below 50 spores/g. The tests were performed with a large variety of bacterial strains, including C. botulinum types C (n = 12), C-D (n = 29), D (n = 5), and D-C (n = 10), other botulinum neurotoxin (BoNT)-producing Clostridium strains (n = 20), non-BoNT-producing clostridia (n = 20), and other bacterial species (n = 23), and showed a high specificity. These PCR assays were compared to previously published real-time PCRs for the detection of C. botulinum in 292 samples collected from cases of botulism events in four European regions. The majority of the samples originated from wild birds (n = 108), poultry (n = 60), and bovines (n = 56). Among the 292 samples, 144 were positive for either the bont/C-D or the bont/D-C gene by using the GeneDisc arrays. The reliability of the results tallied to 97.94%. Interestingly, only BoNT mosaics, types C-D and D-C, were found in naturally contaminated samples whatever their animal origin and their geographical location. Further investigations should now be performed in order to check that mosaic types dominate in Europe and that acquisition of mosaic types helps in survival or adaptation to particular niche
    Effect of insemination of recipients with seminal antigens on pregnancy rate after non-surgical embryo transfer in sows.
    Hazeleger, W. ; Maathuis, C. ; Woudstra, A. ; Kemp, B. - \ 1997
    In: Proc. 5th Int. Conf. on Pig Reproduction, Kerkrade, The Netherlands - p. 104 - 104.
    Landbouw als motor van plattelandsvernieuwing.
    Broekhuizen, R. van - \ 1997
    In: Een nieuw toekomstperspectief voor de Waddenkust / Elerie, J.H.N., Woudstra, A., Groningen : Regio-Project - p. 28 - 33.
    Agriculture as the driving force of rural renovation.
    Broekhuizen, R. van - \ 1997
    In: A new perspective for the Wadden area / Elerie, J.H.N., Woudstra, A., Groningen : Regio-Project - p. 28 - 33.
    Nicarbazine residuen in vleeskuikens : recirculatie en/of versleping?
    Keukens, H.J. ; Kan, C.A. ; Boers, E. ; Woudstra, R.G. - \ 1995
    Wageningen : DLO-Rijks-Kwaliteitsinstituut voor Land- en Tuinbouwprodukten (Rapport / RIKILT-DLO 95.09) - 13
    nicarbazin - pluimveevlees - kippenvlees - nicarbazin - poultry meat - chicken meat
    Van Waddenzee tot Waddenland. De dynamiek van het noordelijke kustgebied.
    Woudstra, A. ; Stobbelaar, D.J. - \ 1995
    Waddenbulletin 4 (1995). - ISSN 0166-4824 - p. 241 - 243.
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