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Research Article

PhylOTU: A High-Throughput Procedure Quantifies Microbial Community Diversity and Resolves Novel Taxa from Metagenomic Data

  • Thomas J. Sharpton mail,

    thomas.sharpton@gladstone.ucsf.edu

    Affiliation: The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America

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  • Samantha J. Riesenfeld,

    Affiliation: The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America

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  • Steven W. Kembel,

    Affiliation: Center for Ecology and Evolutionary Biology, University of Oregon, Eugene, Oregon, United States of America

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  • Joshua Ladau,

    Affiliation: The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America

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  • James P. O'Dwyer,

    Affiliations: Center for Ecology and Evolutionary Biology, University of Oregon, Eugene, Oregon, United States of America, Institute of Integrative and Comparative Biology, University of Leeds, Leeds, United Kingdom

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  • Jessica L. Green,

    Affiliation: Center for Ecology and Evolutionary Biology, University of Oregon, Eugene, Oregon, United States of America

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  • Jonathan A. Eisen,

    Affiliation: Department of Evolution and Ecology, University of California Davis, Davis, California, United States of America

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  • Katherine S. Pollard

    Affiliations: The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America, Institute for Human Genetics & Division of Biostatistics, University of California San Francisco, San Francisco, California, United States of America

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  • Published: January 20, 2011
  • DOI: 10.1371/journal.pcbi.1001061

About the Authors

Thomas J. Sharpton, Samantha J. Riesenfeld, Joshua Ladau, Katherine S. Pollard
The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America
Steven W. Kembel, James P. O'Dwyer, Jessica L. Green
Center for Ecology and Evolutionary Biology, University of Oregon, Eugene, Oregon, United States of America
James P. O'Dwyer
Institute of Integrative and Comparative Biology, University of Leeds, Leeds, United Kingdom
Jonathan A. Eisen
Department of Evolution and Ecology, University of California Davis, Davis, California, United States of America
Katherine S. Pollard
Institute for Human Genetics & Division of Biostatistics, University of California San Francisco, San Francisco, California, United States of America

Corresponding Author

Email: thomas.sharpton@gladstone.ucsf.edu

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: TJS SJR SWK JL JPOD JLG JAE KSP. Performed the experiments: TJS. Analyzed the data: TJS SJR SWK JL JPOD JLG JAE KSP. Contributed reagents/materials/analysis tools: TJS SJR SWK JL. Wrote the paper: TJS SJR SWK JL JPOD JLG JAE KSP.