title: Comparative genome analysis and genome evolution of members of the magnaporthaceae family of fungi.
abstract: BACKGROUND
  Magnaporthaceae, a family of ascomycetes, includes three fungi of great economic importance that cause disease in cereal and turf grasses: Magnaporthe oryzae (rice blast), Gaeumannomyces graminis var. tritici (take-all disease), and Magnaporthe poae (summer patch disease). Recently, the sequenced and assembled genomes for these three fungi were reported. Here, the genomes were compared for orthologous genes in order to identified genes that are unique to the Magnaporthaceae family of fungi. In addition, ortholog clustering was used to identify a core proteome for the Magnaporthaceae, which was examined for diversifying and purifying selection and evidence of two-speed genome evolution.
  
  
  RESULTS
  A genome-scale comparative study was conducted across 74 fungal genomes to identify clusters of orthologous genes unique to the three Magnaporthaceae species as well as species specific genes. We found 1149 clusters that were unique to the Magnaporthaceae family of fungi with 295 of those containing genes from all three species. Gene clusters involved in metabolic and enzymatic activities were highly represented in the Magnaporthaceae specific clusters. Also highly represented in the Magnaporthaceae specific clusters as well as in the species specific genes were transcriptional regulators. In addition, we examined the relationship between gene evolution and distance to repetitive elements found in the genome. No correlations between diversifying or purifying selection and distance to repetitive elements or an increased rate of evolution in secreted and small secreted proteins were observed.
  
  
  CONCLUSIONS
  Taken together, these data show that at the genome level, there is no evidence to suggest multi-speed genome evolution or that proximity to repetitive elements play a role in diversification of genes.
authors.affiliation: Center for Integrated Fungal Research, North Carolina State University, 851 Main campus Drive, Raleigh, NC, 27606, USA. laura.okagaki@gmail.com.|Department of Plant Pathology, North Carolina State University, Raleigh, NC, USA. laura.okagaki@gmail.com.
authors.forename: Laura H
authors.initials: LH
authors.lastname: Okagaki
authors.affiliation: Center for Integrated Fungal Research, North Carolina State University, 851 Main campus Drive, Raleigh, NC, 27606, USA. jsailsbery@hotmail.com.|Bayer CropScience, Research Triangle Park, 2 TW Alexander Drive, Durham, NC, 27709, USA. jsailsbery@hotmail.com.
authors.forename: Joshua K
authors.initials: JK
authors.lastname: Sailsbery
authors.affiliation: Center for Integrated Fungal Research, North Carolina State University, 851 Main campus Drive, Raleigh, NC, 27606, USA. aweyre@ncsu.edu.|Department of Plant Pathology, North Carolina State University, Raleigh, NC, USA. aweyre@ncsu.edu.
authors.forename: Alexander W
authors.initials: AW
authors.lastname: Eyre
authors.affiliation: Center for Integrated Fungal Research, North Carolina State University, 851 Main campus Drive, Raleigh, NC, 27606, USA. radean2@ncsu.edu.|Department of Plant Pathology, North Carolina State University, Raleigh, NC, USA. radean2@ncsu.edu.
authors.forename: Ralph A
authors.initials: RA
authors.lastname: Dean
mesh_terms: D001203:Ascomycota / Q000145:classification / Q000235:genetics*; D005075:Biological Evolution; D055028:Comparative Genomic Hybridization; D005656:Fungal Proteins / Q000235:genetics; D016681:Genome, Fungal; D020082:Magnaporthe / Q000235:genetics*; D005810:Multigene Family; D010802:Phylogeny; D020543:Proteome; D013045:Species Specificity; D014157:Transcription Factors / Q000235:genetics
chemical_list: D005656:Fungal Proteins; D020543:Proteome; D014157:Transcription Factors