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Bayesian community-wide culture-independent microbial source tracking.

ABSTRACT: Contamination is a critical issue in high-throughput metagenomic studies, yet progress toward a comprehensive solution has been limited. We present SourceTracker, a Bayesian approach to estimate the proportion of contaminants in a given community that come from possible source environments. We applied SourceTracker to microbial surveys from neonatal intensive care units (NICUs), offices and molecular biology laboratories, and provide a database of known contaminants for future testing.

SUBMITTER: Knights D 

PROVIDER: S-EPMC3791591 | biostudies-literature | 2011 Jul

REPOSITORIES: biostudies-literature

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Bayesian community-wide culture-independent microbial source tracking.

Knights Dan D   Kuczynski Justin J   Charlson Emily S ES   Zaneveld Jesse J   Mozer Michael C MC   Collman Ronald G RG   Bushman Frederic D FD   Knight Rob R   Kelley Scott T ST  

Nature methods 20110717 9

Contamination is a critical issue in high-throughput metagenomic studies, yet progress toward a comprehensive solution has been limited. We present SourceTracker, a Bayesian approach to estimate the proportion of contaminants in a given community that come from possible source environments. We applied SourceTracker to microbial surveys from neonatal intensive care units (NICUs), offices and molecular biology laboratories, and provide a database of known contaminants for future testing. ...[more]

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