Distinguishing microbial genome fragments based on their composition: evolutionary and comparative genomic perspectives.

ABSTRACT: It is well known that patterns of nucleotide composition vary within and among genomes, although the reasons why these variations exist are not completely understood. Between-genome compositional variation has been exploited to assign environmental shotgun sequences to their most likely originating genomes, whereas within-genome variation has been used to identify recently acquired genetic material such as pathogenicity islands. Recent sequence assignment techniques have achieved high levels of accuracy on artificial data sets, but the relative difficulty of distinguishing lineages with varying degrees of relatedness, and different types of genomic sequence, has not been examined in depth. We investigated the compositional differences in a set of 774 sequenced microbial genomes, finding ra

SUBMITTER: Perry SC 

PROVIDER: S-EPMC2839357 | biostudies-literature | 2010 Jan

REPOSITORIES: biostudies-literature