Diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi.
The class Dothideomycetes is one of the largest groups of fungi with a high level of ecological diversity including many plant pathogens infecting a broad range of hosts. Here, we compare genome features of 18 members of this class, including 6 necrotrophs, 9 (hemi)biotrophs and 3 saprotrophs, to an...
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2012
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oai:doaj.org-article:34e15708f626437fb49743edc583607d2021-11-18T06:06:17ZDiverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi.1553-73661553-737410.1371/journal.ppat.1003037https://doaj.org/article/34e15708f626437fb49743edc583607d2012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23236275/?tool=EBIhttps://doaj.org/toc/1553-7366https://doaj.org/toc/1553-7374The class Dothideomycetes is one of the largest groups of fungi with a high level of ecological diversity including many plant pathogens infecting a broad range of hosts. Here, we compare genome features of 18 members of this class, including 6 necrotrophs, 9 (hemi)biotrophs and 3 saprotrophs, to analyze genome structure, evolution, and the diverse strategies of pathogenesis. The Dothideomycetes most likely evolved from a common ancestor more than 280 million years ago. The 18 genome sequences differ dramatically in size due to variation in repetitive content, but show much less variation in number of (core) genes. Gene order appears to have been rearranged mostly within chromosomal boundaries by multiple inversions, in extant genomes frequently demarcated by adjacent simple repeats. Several Dothideomycetes contain one or more gene-poor, transposable element (TE)-rich putatively dispensable chromosomes of unknown function. The 18 Dothideomycetes offer an extensive catalogue of genes involved in cellulose degradation, proteolysis, secondary metabolism, and cysteine-rich small secreted proteins. Ancestors of the two major orders of plant pathogens in the Dothideomycetes, the Capnodiales and Pleosporales, may have had different modes of pathogenesis, with the former having fewer of these genes than the latter. Many of these genes are enriched in proximity to transposable elements, suggesting faster evolution because of the effects of repeat induced point (RIP) mutations. A syntenic block of genes, including oxidoreductases, is conserved in most Dothideomycetes and upregulated during infection in L. maculans, suggesting a possible function in response to oxidative stress.Robin A OhmNicolas FeauBernard HenrissatConrad L SchochBenjamin A HorwitzKerrie W BarryBradford J CondonAlex C CopelandBraham DhillonFabian GlaserCedar N HesseIdit KostiKurt LaButtiErika A LindquistSusan LucasAsaf A SalamovRosie E BradshawLynda CiuffettiRichard C HamelinGert H J KemaChristopher LawrenceJames A ScottJoseph W SpataforaB Gillian TurgeonPierre J G M de WitShaobin ZhongStephen B GoodwinIgor V GrigorievPublic Library of Science (PLoS)articleImmunologic diseases. AllergyRC581-607Biology (General)QH301-705.5ENPLoS Pathogens, Vol 8, Iss 12, p e1003037 (2012) |
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| topic |
Immunologic diseases. Allergy RC581-607 Biology (General) QH301-705.5 |
| spellingShingle |
Immunologic diseases. Allergy RC581-607 Biology (General) QH301-705.5 Robin A Ohm Nicolas Feau Bernard Henrissat Conrad L Schoch Benjamin A Horwitz Kerrie W Barry Bradford J Condon Alex C Copeland Braham Dhillon Fabian Glaser Cedar N Hesse Idit Kosti Kurt LaButti Erika A Lindquist Susan Lucas Asaf A Salamov Rosie E Bradshaw Lynda Ciuffetti Richard C Hamelin Gert H J Kema Christopher Lawrence James A Scott Joseph W Spatafora B Gillian Turgeon Pierre J G M de Wit Shaobin Zhong Stephen B Goodwin Igor V Grigoriev Diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi. |
| description |
The class Dothideomycetes is one of the largest groups of fungi with a high level of ecological diversity including many plant pathogens infecting a broad range of hosts. Here, we compare genome features of 18 members of this class, including 6 necrotrophs, 9 (hemi)biotrophs and 3 saprotrophs, to analyze genome structure, evolution, and the diverse strategies of pathogenesis. The Dothideomycetes most likely evolved from a common ancestor more than 280 million years ago. The 18 genome sequences differ dramatically in size due to variation in repetitive content, but show much less variation in number of (core) genes. Gene order appears to have been rearranged mostly within chromosomal boundaries by multiple inversions, in extant genomes frequently demarcated by adjacent simple repeats. Several Dothideomycetes contain one or more gene-poor, transposable element (TE)-rich putatively dispensable chromosomes of unknown function. The 18 Dothideomycetes offer an extensive catalogue of genes involved in cellulose degradation, proteolysis, secondary metabolism, and cysteine-rich small secreted proteins. Ancestors of the two major orders of plant pathogens in the Dothideomycetes, the Capnodiales and Pleosporales, may have had different modes of pathogenesis, with the former having fewer of these genes than the latter. Many of these genes are enriched in proximity to transposable elements, suggesting faster evolution because of the effects of repeat induced point (RIP) mutations. A syntenic block of genes, including oxidoreductases, is conserved in most Dothideomycetes and upregulated during infection in L. maculans, suggesting a possible function in response to oxidative stress. |
| format |
article |
| author |
Robin A Ohm Nicolas Feau Bernard Henrissat Conrad L Schoch Benjamin A Horwitz Kerrie W Barry Bradford J Condon Alex C Copeland Braham Dhillon Fabian Glaser Cedar N Hesse Idit Kosti Kurt LaButti Erika A Lindquist Susan Lucas Asaf A Salamov Rosie E Bradshaw Lynda Ciuffetti Richard C Hamelin Gert H J Kema Christopher Lawrence James A Scott Joseph W Spatafora B Gillian Turgeon Pierre J G M de Wit Shaobin Zhong Stephen B Goodwin Igor V Grigoriev |
| author_facet |
Robin A Ohm Nicolas Feau Bernard Henrissat Conrad L Schoch Benjamin A Horwitz Kerrie W Barry Bradford J Condon Alex C Copeland Braham Dhillon Fabian Glaser Cedar N Hesse Idit Kosti Kurt LaButti Erika A Lindquist Susan Lucas Asaf A Salamov Rosie E Bradshaw Lynda Ciuffetti Richard C Hamelin Gert H J Kema Christopher Lawrence James A Scott Joseph W Spatafora B Gillian Turgeon Pierre J G M de Wit Shaobin Zhong Stephen B Goodwin Igor V Grigoriev |
| author_sort |
Robin A Ohm |
| title |
Diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi. |
| title_short |
Diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi. |
| title_full |
Diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi. |
| title_fullStr |
Diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi. |
| title_full_unstemmed |
Diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi. |
| title_sort |
diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen dothideomycetes fungi. |
| publisher |
Public Library of Science (PLoS) |
| publishDate |
2012 |
| url |
https://doaj.org/article/34e15708f626437fb49743edc583607d |
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