Tasting soil fungal diversity with earth tongues: phylogenetic test of SATe alignments for environmental ITS data.

ABSTRACT: An abundance of novel fungal lineages have been indicated by DNA sequencing of the nuclear ribosomal ITS region from environmental samples such as soil and wood. Although phylogenetic analysis of these novel lineages is a key component of unveiling the structure and diversity of complex communities, such analyses are rare for environmental ITS data due to the difficulties of aligning this locus across significantly divergent taxa. One potential approach to this issue is simultaneous alignment and tree estimation. We targeted divergent ITS sequences of the earth tongue fungi (Geoglossomycetes), a basal class in the Ascomycota, to assess the performance of SATé, recent software that combines progressive alignment and tree building. We found that SATé performed well in generating high-quality

SUBMITTER: Wang Z 

PROVIDER: S-EPMC3080880 | biostudies-literature | 2011 Apr

REPOSITORIES: biostudies-literature