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- Title
BorreliaBase: a phylogeny-centered browser of Borrelia genomes.
- Authors
Di, Lia; Pagan, Pedro E.; Packer, Daniel; Martin, Che L.; Akther, Saymon; Ramrattan, Girish; Mongodin, Emmanuel F.; Fraser, Claire M.; Schutzer, Steven E.; Luft, Benjamin J.; Casjens, Sherwood R.; Wei-Gang Qiu
- Abstract
Background: The bacterial genus Borrelia (phylum Spirochaetes) consists of two groups of pathogens represented respectively by B. burgdorferi, the agent of Lyme borreliosis, and B. hermsii, the agent of tick-borne relapsing fever. The number of publicly available Borrelia genomic sequences is growing rapidly with the discovery and sequencing of Borrelia strains worldwide. There is however a lack of dedicated online databases to facilitate comparative analyses of Borrelia genomes. Description: We have developed BorreliaBase, an online database for comparative browsing of Borrelia genomes. The database is currently populated with sequences from 35 genomes of eight Lyme-borreliosis (LB) group Borrelia species and 7 Relapsing-fever (RF) group Borrelia species. Distinct from genome repositories and aggregator databases, BorreliaBase serves manually curated comparative-genomic data including genome-based phylogeny, genome synteny, and sequence alignments of orthologous genes and intergenic spacers. Conclusions: With a genome phylogeny at its center, BorreliaBase allows online identification of hypervariable lipoprotein genes, potential regulatory elements, and recombination footprints by providing evolution-based expectations of sequence variability at each genomic locus. The phylo-centric design of BorreliaBase (http://borreliabase.org) is a novel model for interactive browsing and comparative analysis of bacterial genomes online.
- Publication
BMC Bioinformatics, 2014, Vol 15, Issue 1, p1
- ISSN
1471-2105
- Publication type
Article
- DOI
10.1186/1471-2105-15-233