Multiple Factors Drive Replicating Strand Composition Bias in Bacterial Genomes.

ABSTRACT: Composition bias from Chargaff's second parity rule (PR2) has long been found in sequenced genomes, and is believed to relate strongly with the replication process in microbial genomes. However, some disagreement on the underlying reason for strand composition bias remains. We performed an integrative analysis of various genomic features that might influence composition bias using a large-scale dataset of 1111 genomes. Our results indicate (1) the bias was stronger in obligate intracellular bacteria than in other free-living species (p-value=0.0305); (2) Fusobacteria and Firmicutes had the highest average bias among the 24 microbial phyla analyzed; (3) the strength of selected codon usage bias and generation times were not observably related to strand composition bias (p-value=0.3247); (4)

SUBMITTER: Zhao HL 

PROVIDER: S-EPMC4613354 | biostudies-literature | 2015 Sep

REPOSITORIES: biostudies-literature