Metagenomic profiling of known and unknown microbes with microbeGPS.

ABSTRACT: Microbial community profiling identifies and quantifies organisms in metagenomic sequencing data using either reference based or unsupervised approaches. However, current reference based profiling methods only report the presence and abundance of single reference genomes that are available in databases. Since only a small fraction of environmental genomes is represented in genomic databases, these approaches entail the risk of false identifications and often suggest a higher precision than justified by the data. Therefore, we developed MicrobeGPS, a novel metagenomic profiling approach that overcomes these limitations. MicrobeGPS is the first method that identifies microbiota in the sample and estimates their genomic distances to known reference genomes. With this strategy, MicrobeGPS iden

SUBMITTER: Lindner MS 

PROVIDER: S-EPMC4314203 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature