Using QIIME to analyze 16s rRNA gene sequences from microbial communities

Justin Kuczynski, Jesse Stombaugh, William Anton Walters, Antonio González, J. Gregory Caporaso, Rob Knight

Research output: Contribution to journalArticlepeer-review

437 Scopus citations


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. Microbiol.

Original languageEnglish (US)
Article number1E.5
JournalCurrent Protocols in Microbiology
Issue numberSUPPL.27
StatePublished - 2012


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

ASJC Scopus subject areas

  • Parasitology
  • Microbiology
  • Virology


Dive into the research topics of 'Using QIIME to analyze 16s rRNA gene sequences from microbial communities'. Together they form a unique fingerprint.

Cite this