Efficient Inference of Recent and Ancestral Recombination within Bacterial Populations.

ABSTRACT: Prokaryotic evolution is affected by horizontal transfer of genetic material through recombination. Inference of an evolutionary tree of bacteria thus relies on accurate identification of the population genetic structure and recombination-derived mosaicism. Rapidly growing databases represent a challenge for computational methods to detect recombinations in bacterial genomes. We introduce a novel algorithm called fastGEAR which identifies lineages in diverse microbial alignments, and recombinations between them and from external origins. The algorithm detects both recent recombinations (affecting a few isolates) and ancestral recombinations between detected lineages (affecting entire lineages), thus providing insight into recombinations affecting deep branches of the phylogenetic tree. In

SUBMITTER: Mostowy R 

PROVIDER: S-EPMC5400400 | biostudies-literature | 2017 May

REPOSITORIES: biostudies-literature