Genomic variation in Salmonella enterica core genes for epidemiological typing.

ABSTRACT:

Background

Technological advances in high throughput genome sequencing are making whole genome sequencing (WGS) available as a routine tool for bacterial typing. Standardized procedures for identification of relevant genes and of variation are needed to enable comparison between studies and over time. The core genes--the genes that are conserved in all (or most) members of a genus or species--are potentially good candidates for investigating genomic variation in phylogeny and epidemiology.

Results

We identify a set of 2,882 core genes clusters based on 73 publicly available Salmonella enterica genomes and evaluate their value as typing targets, comparing whole genome typing and traditional methods such as 16S and MLST. A consensus tree based on variation of core genes gives

SUBMITTER: Leekitcharoenphon P 

PROVIDER: S-EPMC3359268 | biostudies-literature | 2012 Mar

REPOSITORIES: biostudies-literature