TY - JOUR
T1 - Diverse Lifestyles and Strategies of Plant Pathogenesis Encoded in the Genomes of Eighteen Dothideomycetes Fungi
AU - Ohm, Robin A.
AU - Feau, Nicolas
AU - Henrissat, Bernard
AU - Schoch, Conrad L.
AU - Horwitz, Benjamin A.
AU - Barry, Kerrie W.
AU - Condon, Bradford J.
AU - Copeland, Alex C.
AU - Dhillon, Braham
AU - Glaser, Fabian
AU - Hesse, Cedar N.
AU - Kosti, Idit
AU - LaButti, Kurt
AU - Lindquist, Erika A.
AU - Lucas, Susan
AU - Salamov, Asaf A.
AU - Bradshaw, Rosie E.
AU - Ciuffetti, Lynda
AU - Hamelin, Richard C.
AU - Kema, Gert H.J.
AU - Lawrence, Christopher
AU - Scott, James A.
AU - Spatafora, Joseph W.
AU - Turgeon, B. Gillian
AU - de Wit, Pierre J.G.M.
AU - Zhong, Shaobin
AU - Goodwin, Stephen B.
AU - Grigoriev, Igor V.
PY - 2012/12
Y1 - 2012/12
N2 - 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.
AB - 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.
UR - http://www.scopus.com/inward/record.url?scp=84868159385&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=84868159385&partnerID=8YFLogxK
U2 - 10.1371/journal.ppat.1003037
DO - 10.1371/journal.ppat.1003037
M3 - Article
C2 - 23236275
AN - SCOPUS:84868159385
SN - 1553-7366
VL - 8
JO - PLoS pathogens
JF - PLoS pathogens
IS - 12
M1 - e1003037
ER -