Diverse Lifestyles and Strategies of Plant Pathogenesis Encoded in the Genomes of Eighteen Dothideomycetes Fungi

PLoS Pathogens

Bernard Henrissat¹  Fabian Glaser²  Idit Kosti³  Benjamin A. Horwitz³  Lynda Ciuffetti⁴  B. Gillian Turgeon⁴  Cedar N. Hesse⁴  Pierre J. G. M. de Wit⁵  Bradford J. Condon⁵  Stephen B. Goodwin⁶  Joseph W. Spatafora⁷  Nicolas Feau⁸  Richard C. Hamelin⁸  Braham Dhillon⁸  Rosie E. Bradshaw⁹  Shaobin Zhong^1,10  Conrad L. Schoch^1,11  Gert H. J. Kema^1,12  Christopher Lawrence^1,13  Igor V. Grigoriev^1,14  Alex C. Copeland^1,15  Erika A. Lindquist^1,15  Robin A. Ohm^1,15  Kurt LaButti^1,15  Kerrie W. Barry^1,15  Asaf A. Salamov^1,15  Susan Lucas^1,15  James A. Scott^1,16 

[1] Architecture et Fonction des Macromolécules Biologiques, Aix-Marseille Université, CNRS, Marseille, France;Bioinformatics Knowledge Unit, Technion - IIT, Haifa, Israel;Department of Biology, Technion - IIT, Haifa, Israel;Department of Botany and Plant Pathology, Oregon State University, Corvallis, Oregon, United States of America;Department of Plant Pathology & Plant-Microbe Biology, Cornell University, Ithaca, New York, United States of America;Department of Plant Pathology, North Dakota State University, Fargo, North Dakota, United States of America;Division of Occupational & Environmental Health, Dalla Lana School of Public Health, University of Toronto, Toronto, Canada;Faculty of Forestry, Forest Sciences Centre, University of British Columbia, Vancouver, British Columbia, Canada;Institute of Molecular BioSciences, Massey University, Palmerston North, New Zealand;Laboratory of Phytopathology, Wageningen University, Wageningen, The Netherlands;NIH/NLM/NCBI, Bethesda, Maryland, United States of America;Natural Resources Canada, Ste-Foy, Quebec, Canada;Plant Research International, Wageningen, The Netherlands;United States Department of Agriculture, Agricultural Research Service, Purdue University, West Lafayette, Indiana, United States of America;United States Department of Energy (DOE) Joint Genome Institute (JGI), Walnut Creek, California, United States of America;Virginia Bioinformatics Institute & Department of Biological Sciences, Blacksburg, Virginia, United States of America

关键词: Fungal genomics;    Plant pathogens;    Plant fungal pathogens;    Comparative genomics;    Protein domains;    Genome analysis;    Proteases;    Fungi;   

DOI  :  10.1371/journal.ppat.1003037

学科分类：生物科学（综合）

来源: Public Library of Science

【 摘 要 】

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.

【 授权许可】

CC BY