MetAmp: combining amplicon data from multiple markers for OTU analysis.

ABSTRACT:

Motivation

We present a novel method and corresponding application, MetAmp, to combine amplicon data from multiple genomic markers into Operational Taxonomic Units (OTUs) for microbial community analysis, calibrating the markers using data from known microbial genomes. When amplicons for multiple markers such as the 16S rRNA gene hypervariable regions are available, MetAmp improves the accuracy of OTU-based methods for characterizing bacterial composition and community structure. MetAmp works best with at least three markers, and is applicable to non-bacterial analyses and to non 16S markers. Our application and testing have been limited to 16S analysis of microbial communities.

Results

We clustered standard test sequences derived from the Human Microbiome Mock Community tes

SUBMITTER: Zhbannikov IY 

PROVIDER: S-EPMC4443678 | biostudies-literature | 2015 Jun

REPOSITORIES: biostudies-literature