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United States Department of Agriculture

Agricultural Research Service

Research Project: CONTROL OF PATHOGENS IN STRAWBERRY AND VEGETABLE PRODUCTION SYSTEMS

Location: Crop Improvement and Protection Research

Title: Genome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire.)

Author
item Lévesque, C. André
item Brouwer, Henk
item Cano, Liliana
item Hamilton, John
item Holt, Carson
item Huitema, Edgar
item Raffaele, Sylvain
item Robideau, Gregg
item Win, Joe
item Zerillo, Marcelo
item Beakes, Gordon
item Boore, Jeffrey
item Busam, Dana
item Dumas, Bernard
item Ferriera, Steve
item Fuerstenberg, Susan
item Gachon, Claire M
item Gaulin, Elodie
item Govers, Francine
item Grenville-brigg, Laura
item Horner, Neil
item Hostetler, Jessica
item Jiang, Rays H.y.
item Johnson, Justin
item Krajaejun, Theerapong
item Lin, Haining
item Meijer, Harold J.g.
item Moore, Barry
item Morris, Paul
item Phuntmart, Vipaporn
item Puiu, Daniela
item Shetty, Jyoti
item Stajich, Jason
item Tripathy, Sucheta
item Wawra, Stephan
item West, Pieter Van
item Whitty, Brett
item Coutinho, Pedro
item Martin, Frank
item Thines, Marco
item Thomas, Paul
item Tyler, Brett
item Vries, Ronald De
item Kamoun, Sophien
item Yandell, Mark
item Tisserat, Ned
item Buell, C. Robin

Submitted to: Genome Biology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 7/13/2010
Publication Date: 7/13/2010
Publication URL: genomebiology.com/2010/11/7/R73
Citation: Lévesque, C., Brouwer, H., Cano, L., Hamilton, J.P., Holt, C., Huitema, E., Raffaele, S., Robideau, G.P., Win, J., Zerillo, M.M., Beakes, G.W., Boore, J.L., Busam, D., Dumas, B., Ferriera, S., Fuerstenberg, S.I., Gachon, C.M., Gaulin, E., Govers, F., Grenville-Brigg, L., Horner, N., Hostetler, J., Jiang, R., Johnson, J., Krajaejun, T., Lin, H., Meijer, H., Moore, B., Morris, P., Phuntmart, V., Puiu, D., Shetty, J., Stajich, J., Tripathy, S., Wawra, S., West, P., Whitty, B.R., Coutinho, P., Martin, F.N., Thines, M., Thomas, P.D., Tyler, B.M., Vries, R., Kamoun, S., Yandell, M., Tisserat, N., Buell, C. 2010. Genome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire.Genome Biology. 11:R73.

Interpretive Summary: This manuscript describes the sequencing of the nuclear genome of two isolates of the plant pathogen Pythium ultimum and its analysis.

Technical Abstract: The P. ultimum DAOM BR144 (=CBS 805.95 = ATCC200006) genome (42.8 Mb) encodes 15,290 genes, and has extensive sequence similarity and synteny with related Phytophthora spp., including the potato late blight pathogen Phytophthora infestans. Whole transcriptome sequencing revealed expression of 86 % of the genes, with detectable differential expression of suites of genes under abiotic and xenobiotic stress. Analysis of the predicted proteome revealed a large repertoire of proteins involved in plant pathogen interactions although surprisingly, the P. ultimum genome does not encode any classical RXLR effectors and only a few Crinkler genes, which are abundant in 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 in a genome outside the metazoans. 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 Pythiaceae compared to the Peronosporaceae.

Last Modified: 8/24/2016
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