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

doi:10.1002/0471250953.bi1007s36

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

Informatics, Computing, and Cyber Systems, School of

Research output: Contribution to journal › Article › peer-review

536 Scopus citations

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 language	English (US)
Article number	10.7
Journal	Current protocols in bioinformatics
Issue number	SUPPL.36
DOIs	https://doi.org/10.1002/0471250953.bi1007s36
State	Published - Dec 2011

Keywords

16S
Bioinformatics
Microbial ecology
QIIME
SSU
Software

ASJC Scopus subject areas

Structural Biology
Biochemistry

Access to Document

10.1002/0471250953.bi1007s36

Cite this

@article{5ad95e5b29024d8b937c094ad9ff1bb8,

title = "Using QIIME to analyze 16S rrna gene sequences from microbial communities",

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.",

keywords = "16S, Bioinformatics, Microbial ecology, QIIME, SSU, Software",

author = "Justin Kuczynski and Jesse Stombaugh and Walters, {William Anton} and Antonio Gonz{\'a}lez and Caporaso, {J. Gregory} and Rob Knight",

year = "2011",

month = dec,

doi = "10.1002/0471250953.bi1007s36",

language = "English (US)",

journal = "Current protocols in bioinformatics",

issn = "1934-3396",

publisher = "John Wiley & Sons Inc.",

number = "SUPPL.36",

}

TY - JOUR

T1 - Using QIIME to analyze 16S rrna gene sequences from microbial communities

AU - Kuczynski, Justin

AU - Stombaugh, Jesse

AU - Walters, William Anton

AU - González, Antonio

AU - Caporaso, J. Gregory

AU - Knight, Rob

PY - 2011/12

Y1 - 2011/12

N2 - 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.

AB - 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.

KW - 16S

KW - Bioinformatics

KW - Microbial ecology

KW - QIIME

KW - SSU

KW - Software

UR - http://www.scopus.com/inward/record.url?scp=84857596874&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84857596874&partnerID=8YFLogxK

U2 - 10.1002/0471250953.bi1007s36

DO - 10.1002/0471250953.bi1007s36

M3 - Article

C2 - 22161565

AN - SCOPUS:84857596874

SN - 1934-3396

JO - Current protocols in bioinformatics

JF - Current protocols in bioinformatics

IS - SUPPL.36

M1 - 10.7

ER -

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

Abstract

Keywords

ASJC Scopus subject areas

Access to Document

Other files and links

Fingerprint

Cite this