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RAMI: a tool for identification and characterization of phylogenetic clusters in microbial communities

In English

Författare

Summary, in English

Motivation: The most common approach to estimate microbial diversity is based on the analysis of DNA sequences of specific target genes including ribosomal genes. Commonly, the sequences are grouped into operational taxonomic units based on genetic distance (sequence similarity) instead of genetic change (patristic distance). This method may fail to adequately identify clusters of evolutionary related sequences and it provides no information on the phylogenetic structure of the community. An ease-of-use web application for this purpose has been missing. Results: We have developed RAMI, which clusters related nodes in a phylogenetic tree based on the patristic distance. RAMI also produces indices of cluster properties and other indices used in population and community studies on-the-fly.

Publiceringsår

2009

Språk

Engelska

Sidor

736-742

Publikation/Tidskrift/Serie

Bioinformatics

Volym

25

Issue

6

Dokumenttyp

Artikel i tidskrift

Förlag

Oxford University Press

Ämne

  • Bioinformatics and Systems Biology

Status

Published

Forskningsgrupp

  • Microbial Ecology
  • Theoretical Population Ecology and Evolution Group

ISBN/ISSN/Övrigt

  • ISSN: 1367-4803