Phylogenetic detection of recombination with a Bayesian prior on the distance between trees.

ABSTRACT: Genomic regions participating in recombination events may support distinct topologies, and phylogenetic analyses should incorporate this heterogeneity. Existing phylogenetic methods for recombination detection are challenged by the enormous number of possible topologies, even for a moderate number of taxa. If, however, the detection analysis is conducted independently between each putative recombinant sequence and a set of reference parentals, potential recombinations between the recombinants are neglected. In this context, a recombination hotspot can be inferred in phylogenetic analyses if we observe several consecutive breakpoints. We developed a distance measure between unrooted topologies that closely resembles the number of recombinations. By introducing a prior distribution on these

SUBMITTER: Martins Lde O 

PROVIDER: S-EPMC2440540 | biostudies-literature | 2008 Jul

REPOSITORIES: biostudies-literature