Hierarchical and Spatially Explicit Clustering of DNA Sequences with BAPS Software

摘要: Phylogeographical analyses have become commonplace for a myriad of organisms with the advent cheap DNA sequencing technologies. Bayesian model-based clustering is powerful tool detecting important patterns in such data and can be used to decipher even quite subtle signals systematic differences molecular variation. Here, we introduce two upgrades Analysis Population Structure (BAPS) software, which enable 1) spatially explicit modeling variation sequences 2) hierarchical sequence reveal nested genetic population structures. We provide direct interface map results from spatial Google Maps using portal http://www.spatialepidemiology.net/ illustrate this approach Borrelia burgdorferi. The usefulness demonstrated through an analysis metapopulation structure within bacterial experiencing high level local horizontal gene transfer. tools that are introduced freely available at http://www.helsinki.fi/bsg/software/BAPS/.