Unit

UNIT 10.7 Using QIIME to Analyze 16S rRNA Gene Sequences from Microbial Communities

  1. Justin Kuczynski1,
  2. Jesse Stombaugh2,
  3. William Anton Walters1,
  4. Antonio González3,
  5. J. Gregory Caporaso4,
  6. Rob Knight2

Published Online: 1 DEC 2011

DOI: 10.1002/0471250953.bi1007s36

Current Protocols in Bioinformatics

Current Protocols in Bioinformatics

How to Cite

Kuczynski, J., Stombaugh, J., Walters, W. A., González, A., Caporaso, J. G. and Knight, R. 2011. Using QIIME to Analyze 16S rRNA Gene Sequences from Microbial Communities. Current Protocols in Bioinformatics. 36:10.7:10.7.1–10.7.20.

Author Information

  1. 1

    Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, Colorado

  2. 2

    Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado

  3. 3

    Department of Computer Science, University of Colorado, Boulder, Colorado

  4. 4

    Department of Computer Science, Northern Arizona University, Flagstaff, Arizona

Publication History

  1. Published Online: 1 DEC 2011
  2. Published Print: DEC 2011

Abstract

QIIME (canonically pronounced “chime”) is a software application that performs microbial community analysis. It is an acronym for Quantitative Insights Into Microbial Ecology, and has been used to analyze and interpret nucleic acid sequence data from fungal, viral, bacterial, and archaeal communities. The following protocols describe how to install QIIME on a single computer and use it to analyze microbial 16S sequence data from nine distinct microbial communities. Curr. Protoc. Bioinform. 36:10.7.1-10.7.20. © 2011 by John Wiley & Sons, Inc.

Keywords:

  • microbial ecology;
  • 16S;
  • SSU;
  • software;
  • bioinformatics;
  • QIIME