Comparative Genome Analysis of Filamentous Fungi Reveals Gene Family Expansions Associated with Fungal Pathogenesis Export

@article{citeulike:3126451, abstract = {Fungi and oomycetes are the causal agents of many of the most serious diseases of plants. Here we report a detailed comparative analysis of the genome sequences of thirty-six species of fungi and oomycetes, including seven plant pathogenic species, that aims to explore the common genetic features associated with plant disease-causing species. The predicted translational products of each genome have been clustered into groups of potential orthologues using Markov Chain Clustering and the data integrated into the e-Fungi object-oriented data warehouse ( http://www.e-fungi.org.uk/ ). Analysis of the species distribution of members of these clusters has identified proteins that are specific to filamentous fungal species and a group of proteins found only in plant pathogens. By comparing the gene inventories of filamentous, ascomycetous phytopathogenic and free-living species of fungi, we have identified a set of gene families that appear to have expanded during the evolution of phytopathogens and may therefore serve important roles in plant disease. We have also characterised the predicted set of secreted proteins encoded by each genome and identified a set of protein families which are significantly over-represented in the secretomes of plant pathogenic fungi, including putative effector proteins that might perturb host cell biology during plant infection. The results demonstrate the potential of comparative genome analysis for exploring the evolution of eukaryotic microbial pathogenesis.}, address = {School of Biosciences, Geoffrey Pope Building, University of Exeter, Exeter, United Kingdom.}, author = {Soanes, Darren M. and Alam, Intikhab and Cornell, Mike and Wong, Han M. and Hedeler, Cornelia and Paton, Norman W. and Rattray, Magnus and Hubbard, Simon J. and Oliver, Stephen G. and Talbot, Nicholas J.}, citeulike-article-id = {3126451}, citeulike-linkout-0 = {http://dx.doi.org/10.1371/journal.pone.0002300}, citeulike-linkout-1 = {http://view.ncbi.nlm.nih.gov/pubmed/18523684}, citeulike-linkout-2 = {http://www.hubmed.org/display.cgi?uids=18523684}, day = {4}, doi = {10.1371/journal.pone.0002300}, issn = {1932-6203}, journal = {PLoS ONE}, keywords = {analysis, comparative\_genomics, fungi, genome, phylogenomics}, month = {June}, number = {6}, pages = {e2300+}, posted-at = {2008-08-16 00:49:43}, priority = {2}, publisher = {Public Library of Science}, title = {Comparative Genome Analysis of Filamentous Fungi Reveals Gene Family Expansions Associated with Fungal Pathogenesis}, url = {http://dx.doi.org/10.1371/journal.pone.0002300}, volume = {3}, year = {2008} }

TY - JOUR ID - citeulike:3126451 L3 - citeulike-article-id:3126451 N2 - Fungi and oomycetes are the causal agents of many of the most serious diseases of plants. Here we report a detailed comparative analysis of the genome sequences of thirty-six species of fungi and oomycetes, including seven plant pathogenic species, that aims to explore the common genetic features associated with plant disease-causing species. The predicted translational products of each genome have been clustered into groups of potential orthologues using Markov Chain Clustering and the data integrated into the e-Fungi object-oriented data warehouse ( http://www.e-fungi.org.uk/ ). Analysis of the species distribution of members of these clusters has identified proteins that are specific to filamentous fungal species and a group of proteins found only in plant pathogens. By comparing the gene inventories of filamentous, ascomycetous phytopathogenic and free-living species of fungi, we have identified a set of gene families that appear to have expanded during the evolution of phytopathogens and may therefore serve important roles in plant disease. We have also characterised the predicted set of secreted proteins encoded by each genome and identified a set of protein families which are significantly over-represented in the secretomes of plant pathogenic fungi, including putative effector proteins that might perturb host cell biology during plant infection. The results demonstrate the potential of comparative genome analysis for exploring the evolution of eukaryotic microbial pathogenesis. IS - 6 JF - PLoS ONE SN - 1932-6203 AD - School of Biosciences, Geoffrey Pope Building, University of Exeter, Exeter, United Kingdom. TI - Comparative Genome Analysis of Filamentous Fungi Reveals Gene Family Expansions Associated with Fungal Pathogenesis PB - Public Library of Science VL - 3 SP - e2300 KW - analysis KW - comparative_genomics KW - fungi KW - genome KW - phylogenomics AU - Soanes, Darren AU - Alam, Intikhab AU - Cornell, Mike AU - Wong, Han AU - Hedeler, Cornelia AU - Paton, Norman AU - Rattray, Magnus AU - Hubbard, Simon AU - Oliver, Stephen AU - Talbot, Nicholas PY - 2008/06/04/ UR - http://dx.doi.org/10.1371/journal.pone.0002300 ER -