The Challenges Posed by Large Data Sets in Assembling the Plant and Fungal Trees of Life
Barbara, Robbertse , Schoch, Conrad L. , Joey, Spatafora .
Using Phylogenetic Informativeness for Gene Targeting in the Fungal Tree of Life.
The multi-laboratory project “Assembling the Fungal Tree of Life” (AFTOL) had a goal to maximize the phylogenetic placement of fungal taxa by analyzing sequences from 6 broadly amplified marker genes and loci. This resulted in the discovery of numerous novel relationships. However, many of the deep nodes in this phylogeny still lack resolution. Now, numerous sequenced fungal genomes representing diverse lineages provide an opportunity to target genes which will inform us about specific ancient divergences. Consequently, a new project aiming to resolve the evolutionary history of Fungi (AFTOL2) will select a more focused set of representative taxa (~200) while expanding the number of genes (~25). Using a pipeline of scripts (Hal), universal, low copy homologous genes were identified and alignments constructed in an automated process. The phylogenetic informativeness of each gene was assessed in order to quantify informativeness of characters across historical epochs. This enabled us to rank genes with characters that evolved close to the optimal rate distribution for the time period of our interest. We will present data on this in the context of our efforts to maximise phylogenetic signal for deep divergences in the Fungal Tree of Life.
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Assembling the Fungal Tree of Life
1 - Oregon State University, Department of Botany & Plant Pathology, 2082 Cordley Hall, Corvallis, OR, 97331, USA
2 - National Center for Biological Information (GenBank), National Library of Medicine, National Institutes of Heath, 45 Center Drive, MSC 6510, Bethesda, Maryland, 20892, USA
Presentation Type: Symposium or Colloquium Presentation
Location: Ballroom 2/Cliff Lodge - Level B
Date: Tuesday, July 28th, 2009
Time: 9:45 AM