Using QIIME to analyze 16S rrna gene sequences from microbial communities

Justin Kuczynski, Jesse Stombaugh, William Anton Walters, Antonio González, James G Caporaso, Rob Knight

Research output: Contribution to journalArticle

213 Citations (Scopus)

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.

Original languageEnglish (US)
Article number10.7
JournalCurrent Protocols in Bioinformatics
Issue numberSUPPL.36
DOIs
StatePublished - Dec 2011

Fingerprint

Microbial Genes
Nucleic acid sequences
Ecology
Application programs
Nucleic Acids
Software
Genes
Network protocols

Keywords

  • 16S
  • Bioinformatics
  • Microbial ecology
  • QIIME
  • Software
  • SSU

ASJC Scopus subject areas

  • Structural Biology
  • Biochemistry

Cite this

Using QIIME to analyze 16S rrna gene sequences from microbial communities. / Kuczynski, Justin; Stombaugh, Jesse; Walters, William Anton; González, Antonio; Caporaso, James G; Knight, Rob.

In: Current Protocols in Bioinformatics, No. SUPPL.36, 10.7, 12.2011.

Research output: Contribution to journalArticle

Kuczynski, Justin ; Stombaugh, Jesse ; Walters, William Anton ; González, Antonio ; Caporaso, James G ; Knight, Rob. / Using QIIME to analyze 16S rrna gene sequences from microbial communities. In: Current Protocols in Bioinformatics. 2011 ; No. SUPPL.36.
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