BIGSdb: Scalable analysis of bacterial genome variation at the population level

Background: The opportunities for bacterial population genomics that are being realised by the application of parallel nucleotide sequencing require novel bioinformatics platforms. These must be capable of the storage, retrieval, and analysis of linked phenotypic and genotypic information in an accessible, scalable and computationally efficient manner. Results: The Bacterial Isolate Genome Sequence Database (BIGSDB) is a scalable, open source, web-accessible database system that meets these needs, enabling phenotype and sequence data, which can range from a single sequence read to whole genome data, to be efficiently linked for a limitless number of bacterial specimens. The system builds on the widely used mlstdbNet software, developed for the storage and distribution of multilocus sequence typing (MLST) data, and incorporates the capacity to define and identify any number of loci and genetic variants at those loci within the stored nucleotide sequences. These loci can be further orga...

• Type: Journal
• Year: 2010
• Where: BMCBI
• Authors: Keith A. Jolley, Martin C. J. Maiden
• Keywords: Bacterial, Bacterial Isolate Genome, Bacterial Population Genomics, BMCBI 2010, Business