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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Signatures of adaptation to obligate biotrophy in the Hyaloperonospora arabidopsidis genome
Baxter, L. ; Tripathy, S. ; Ishaque, N. ; Boot, N. ; Cabral, A. ; Kemen, E. ; Thines, M. ; Ah-Fong, A. ; Anderson, R. ; Badejoko, W. ; Bittner-Eddy, P. ; Boore, J.L. ; Chibucos, M.C. ; Coates, M. ; Dehal, P. ; Delehaunty, K. ; Dong, S. ; Downton, P. ; Dumas, B. ; Fabro, G. ; Fronick, C. ; Fuerstenberg, S.I. ; Fulton, L. ; Gaulin, E. ; Govers, F. ; Hughes, L. ; Humphray, S. ; Jiang, R.H.Y. ; Judelson, H. ; Kamoun, S. ; Kyung, K. ; Meijer, H.J.G. ; Minx, P. ; Morris, P. ; Nelson, J. ; Phuntumart, V. ; Qutob, D. ; Rehmany, A. ; Rougon-Cardoso, A. ; Ryden, P. ; Torto-Alalibo, T. ; Studholme, D. ; Wang, Y. ; Win, J. ; Wood, J. ; Clifton, S.W. ; Rogers, J. ; Ackerveken, G. van den; Jones, J.D.G. ; McDowell, J.M. ; Beynon, J. ; Tyler, B.M. - \ 2010
Science 330 (2010)6010. - ISSN 0036-8075 - p. 1549 - 1551.
sojae-effector avr1b - downy mildew - phytophthora - plant - thaliana - cells - suppression - parasites - proteins - delivery
Many oomycete and fungal plant pathogens are obligate biotrophs, which extract nutrients only from living plant tissue and cannot grow apart from their hosts. Although these pathogens cause substantial crop losses, little is known about the molecular basis or evolution of obligate biotrophy. Here, we report the genome sequence of the oomycete Hyaloperonospora arabidopsidis (Hpa), an obligate biotroph and natural pathogen of Arabidopsis thaliana. In comparison with genomes of related, hemibiotrophic Phytophthora species, the Hpa genome exhibits dramatic reductions in genes encoding (i) RXLR effectors and other secreted pathogenicity proteins, (ii) enzymes for assimilation of inorganic nitrogen and sulfur, and (iii) proteins associated with zoospore formation and motility. These attributes comprise a genomic signature of evolution toward obligate biotrophy
Genome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire
Lévesque, C.A. ; Brouwer, H. ; Cano, L. ; Hamilton, J.P. ; Holt, C. ; Huitema, E. ; Raffaele, S. ; Robideau, G.P. ; Thines, M. ; Win, J. ; Zerillo, M.M. ; Beakes, G.W. ; Boore, J.L. ; Busam, D. ; Dumas, B. ; Ferriera, S. ; Fuerstenberg, S.I. ; Gachon, C.M.M. ; Gaulin, E. ; Govers, F. ; Grenville-Briggs, L. ; Horner, N. ; Hostetler, J. ; Jiang, R.H.Y. ; Johnson, J. ; Krajaejun, T. ; Lin, H. ; Meijer, H.J.G. ; Moore, B. ; Morris, P. ; Phuntmart, V. ; Puiu, D. ; Shetty, J. ; Stajich, J.E. ; Tripathy, S. ; Wawra, S. ; West, P. van; Whitty, B.R. ; Coutinho, P.M. ; Henrissat, B. ; Martin, F. ; Thomas, P.D. ; Tyler, B.M. ; Vries, R.P. de; Kamoun, S. ; Yandell, M. ; Tisserat, N. ; Buell, C.R. - \ 2010
Genome Biology 11 (2010)7. - ISSN 1474-7596 - 22 p.
oomycete phytophthora-infestans - potato famine pathogen - protein families - mitochondrial genome - pleiotropic drug - gene family - arabidopsis-thaliana - cadherin superfamily - microbe interactions - molecular evolution
Background - Pythium ultimum is a ubiquitous oomycete plant pathogen responsible for a variety of diseases on a broad range of crop and ornamental species. Results -The P. ultimum genome (42.8 Mb) encodes 15,290 genes and has extensive sequence similarity and synteny with related Phytophthora species, including the potato blight pathogen Phytophthora infestans. Whole transcriptome sequencing revealed expression of 86% of genes, with detectable differential expression of suites of genes under abiotic stress and in the presence of a host. The predicted proteome includes a large repertoire of proteins involved in plant pathogen interactions, although, surprisingly, the P. ultimum genome does not encode any classical RXLR effectors and relatively few Crinkler genes in comparison to related phytopathogenic oomycetes. A lower number of enzymes involved in carbohydrate metabolism were present compared to Phytophthora species, with the notable absence of cutinases, suggesting a significant difference in virulence mechanisms between P. ultimum and more host-specific oomycete species. Although we observed a high degree of orthology with Phytophthora genomes, there were novel features of the P. ultimum proteome, including an expansion of genes involved in proteolysis and genes unique to Pythium. We identified a small gene family of cadherins, proteins involved in cell adhesion, the first report of these in a genome outside the metazoans. Conclusions - Access to the P. ultimum genome has revealed not only core pathogenic mechanisms within the oomycetes but also lineage-specific genes associated with the alternative virulence and lifestyles found within the pythiaceous lineages compared to the Peronosporaceae.
Phytophthora genome sequences uncover evolutionary origins and mechanisms of pathogenesis
Tyler, B.M. ; Tripathy, S. ; Zhang, X. ; Dehal, P. ; Jiang, R.H.Y. ; Aerts, A. ; Arredondo, F.D. ; Baxter, L. ; Bensasson, D. ; Beynon, J.L. ; Chapman, J. ; Damasceno, C.M.B. ; Dorrance, A.E. ; Dou, D. ; Dickerman, A.W. ; Dubchak, I.L. ; Garbelotto, M. ; Gijzen, M. ; Gordon, S.G. ; Govers, F. ; Grunwald, N.J. ; Huang, W. ; Ivors, K.L. ; Jones, R.W. ; Kamoun, S. ; Krampis, K. ; Lamour, K.H. ; Lee, M.K. ; McDonald, W.H. ; Medina, M. ; Meijer, H.J.G. ; Nordberg, E.K. ; Maclean, D.J. ; Ospina-Giraldo, M.D. ; Morris, P.F. ; Phuntumart, V. ; Putnam, N.H. ; Rash, S. ; Rose, J.K.C. ; Sakihama, Y. ; Salamov, A.A. ; Savidor, A. ; Scheuring, C.F. ; Smith, B.M. ; Sobral, B.W.S. ; Terry, A. ; Torto-Alalibo, T.A. ; Win, J. ; Xu, Z. ; Zhang, H. ; Grigoriev, I.V. ; Rokhsar, D.S. ; Boore, J.L. - \ 2006
Science 313 (2006)5791. - ISSN 0036-8075 - p. 1261 - 1266.
effector proteins - downy mildew - resistance - arabidopsis - avirulence - genes - locus - sojae - expression - virulence
Draft genome sequences have been determined for the soybean pathogen Phytophthora sojae and the sudden oak death pathogen Phytophthora ramorum. Oömycetes such as these Phytophthora species share the kingdom Stramenopila with photosynthetic algae such as diatoms, and the presence of many Phytophthora genes of probable phototroph origin supports a photosynthetic ancestry for the stramenopiles. Comparison of the two species' genomes reveals a rapid expansion and diversification of many protein families associated with plant infection such as hydrolases, ABC transporters, protein toxins, proteinase inhibitors, and, in particular, a superfamily of 700 proteins with similarity to known oömycete avirulence genes
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