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A Gene-By-Gene Approach to Bacterial Population Genomics: Whole Genome MLST of Campylobacter
Department of Zoology, The Tinbergen Building, University of Oxford, South Parks Road, Oxford OX1 3PS, UK
Microbiology & Infection, Institute of Life Science, College of Medicine, Swansea University, Swansea SA2 8PP, UK
These authors contributed equally to this work.
* Author to whom correspondence should be addressed.
Received: 1 March 2012; in revised form: 30 March 2012 / Accepted: 31 March 2012 / Published: 12 April 2012
Abstract: Campylobacteriosis remains a major human public health problem world-wide. Genetic analyses of Campylobacter isolates, and particularly molecular epidemiology, have been central to the study of this disease, particularly the characterization of Campylobacter genotypes isolated from human infection, farm animals, and retail food. These studies have demonstrated that Campylobacter populations are highly structured, with distinct genotypes associated with particular wild or domestic animal sources, and that chicken meat is the most likely source of most human infection in countries such as the UK. The availability of multiple whole genome sequences from Campylobacter isolates presents the prospect of identifying those genes or allelic variants responsible for host-association and increased human disease risk, but the diversity of Campylobacter genomes present challenges for such analyses. We present a gene-by-gene approach for investigating the genetic basis of phenotypes in diverse bacteria such as Campylobacter, implemented with the BIGSdb software on the pubMLST.org/campylobacter website.
Keywords: Campylobacter jejuni; Campylobacter coli; campylobacteriosis; whole genome sequencing; next generation sequencing; genome analysis
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Sheppard, S.K.; Jolley, K.A.; Maiden, M.C.J. A Gene-By-Gene Approach to Bacterial Population Genomics: Whole Genome MLST of Campylobacter. Genes 2012, 3, 261-277.
Sheppard SK, Jolley KA, Maiden MCJ. A Gene-By-Gene Approach to Bacterial Population Genomics: Whole Genome MLST of Campylobacter. Genes. 2012; 3(2):261-277.
Sheppard, Samuel K.; Jolley, Keith A.; Maiden, Martin C. J. 2012. "A Gene-By-Gene Approach to Bacterial Population Genomics: Whole Genome MLST of Campylobacter." Genes 3, no. 2: 261-277.