Conserved synteny in Trichoderma reesei with related filamentous ascomycetes

D. Martinez, Markku Saloheimo, R. Berka, B. Henrissat, M.A. Nelson

    Research output: Chapter in Book/Report/Conference proceedingConference abstract in proceedingsScientific

    Abstract

    The current pace of whole genome sequencing has made it almost trivial to produce nearly complete fungal sequences. This now gives us the ability to perform whole genome comparisons of fungi to investigate biological questions and genome evolution. To this end, syntenic regions between Trichoderma reesei and four other filamentous fungi (Fusarium graminearum, Neurospora crassa, Magnaporthe grisea and Aspergillus nidulans) were identified. An algorithm was designed that takes homologs from two fungi and places them side by side, optimizing homolog density, and minimizing gaps between homologs and the number of homologs in a syntenic region. As would be expected, the percent coverage of synteny between T. reesei and the other four ascomycetes declines with time since the last common ancestor, with F. graminearum having the highest synteny and A. nidulans the lowest. This approach enabled the identification of regions in the T. reesei genome that were conserved in multiple genomes as well as highlighting regions of the T. reesei genome that have changed dramatically. Finally, for genes within these highly conserved regions and for the gaps, GO terms and Enzyme Commission codes were assigned. These results were used to assess the possibility that there is selective pressure to force genes that are in the same biochemical pathway, have similar function or are involved in similar processes to maintain or gain proximity.
    Original languageEnglish
    Title of host publication3rd European Federation of Biotechnology Conference
    Subtitle of host publicationPhysiology of Yeasts and Filamentous Fungi PYFF3
    Place of PublicationEspoo
    PublisherVTT Technical Research Centre of Finland
    Pages55
    ISBN (Electronic)978-951-38-6314-2
    ISBN (Print)978-951-38-6313-5
    Publication statusPublished - 2007
    Event3rd European Federation of Biotechnology Conference : Physiology of Yeasts and Filamentous Fungi - Helsinki, Finland
    Duration: 13 Jun 200716 Jun 2007

    Publication series

    SeriesVTT Symposium
    Number245
    ISSN0357-9387

    Conference

    Conference3rd European Federation of Biotechnology Conference
    Abbreviated titlePYFF3
    Country/TerritoryFinland
    CityHelsinki
    Period13/06/0716/06/07

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