title: Phylogenetics and the cohesion of bacterial genomes.
abstract: Gene acquisition is an ongoing process in many bacterial genomes, contributing to adaptation and ecological diversification. Lateral gene transfer is considered the primary explanation for discordance among gene phylogenies and as an obstacle to reconstructing the tree of life. We measured the extent of phylogenetic conflict and alien-gene acquisition within quartets of sequenced genomes. Although comparisons of complete gene inventories indicate appreciable gain and loss of genes, orthologs available for phylogenetic reconstruction are consistent with a single tree.
authors.affiliation: Department of Biochemistry and Molecular Biophysics, University of Arizona, Tucson, AZ, 85721, USA.
authors.forename: Vincent
authors.initials: V
authors.lastname: Daubin
authors.forename: Nancy A
authors.initials: NA
authors.lastname: Moran
authors.forename: Howard
authors.initials: H
authors.lastname: Ochman
mesh_terms: D001419:Bacteria / Q000145:classification* / Q000235:genetics*; D005075:Biological Evolution; D016993:Chlamydophila pneumoniae / Q000235:genetics; D019295:Computational Biology; D004926:Escherichia coli / Q000235:genetics; D022761:Gene Transfer, Horizontal; D005798:Genes, Bacterial; D020459:Genes, rRNA; D016680:Genome, Bacterial; D016013:Likelihood Functions; D010802:Phylogeny; D012329:RNA, Bacterial / Q000235:genetics; D012335:RNA, Ribosomal / Q000235:genetics; D011995:Recombination, Genetic; D013045:Species Specificity
chemical_list: D012329:RNA, Bacterial; D012335:RNA, Ribosomal