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MLST revisited: the gene-by-gene approach to bacterial genomics.

ABSTRACT: Multilocus sequence typing (MLST) was proposed in 1998 as a portable sequence-based method for identifying clonal relationships among bacteria. Today, in the whole-genome era of microbiology, the need for systematic, standardized descriptions of bacterial genotypic variation remains a priority. Here, to meet this need, we draw on the successes of MLST and 16S rRNA gene sequencing to propose a hierarchical gene-by-gene approach that reflects functional and evolutionary relationships and catalogues bacteria 'from domain to strain'. Our gene-based typing approach using online platforms such as the Bacterial Isolate Genome Sequence Database (BIGSdb) allows the scalable organization and analysis of whole-genome sequence data.

SUBMITTER: Maiden MC

PROVIDER: S-EPMC3980634 | biostudies-literature | 2013 Oct

REPOSITORIES: biostudies-literature

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MLST revisited: the gene-by-gene approach to bacterial genomics.

Maiden Martin C J MC Jansen van Rensburg Melissa J MJ Bray James E JE Earle Sarah G SG Ford Suzanne A SA Jolley Keith A KA McCarthy Noel D ND

Nature reviews. Microbiology 20130902 10

Multilocus sequence typing (MLST) was proposed in 1998 as a portable sequence-based method for identifying clonal relationships among bacteria. Today, in the whole-genome era of microbiology, the need for systematic, standardized descriptions of bacterial genotypic variation remains a priority. Here, to meet this need, we draw on the successes of MLST and 16S rRNA gene sequencing to propose a hierarchical gene-by-gene approach that reflects functional and evolutionary relationships and catalogue ...[more]

PMID: 23979428

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