Gmos: Rapid Detection of Genome Mosaicism over Short Evolutionary Distances.

ABSTRACT: Prokaryotic and viral genomes are often altered by recombination and horizontal gene transfer. The existing methods for detecting recombination are primarily aimed at viral genomes or sets of loci, since the expensive computation of underlying statistical models often hinders the comparison of complete prokaryotic genomes. As an alternative, alignment-free solutions are more efficient, but cannot map (align) a query to subject genomes. To address this problem, we have developed gmos (Genome MOsaic Structure), a new program that determines the mosaic structure of query genomes when compared to a set of closely related subject genomes. The program first computes local alignments between query and subject genomes and then reconstructs the query mosaic structure by choosing the best local alig

SUBMITTER: Domazet-Loso M 

PROVIDER: S-EPMC5112998 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature