Phylogenetic signal and functional categories in Proteobacteria genomes
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Phylogenetic signal and functional categories in Proteobacteria genomes

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Phylogenetic signal and functional categories in Proteobacteria genomes

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dc.contributor.author Comas Espadas, Iñaki
dc.contributor.author Moya, Andrés
dc.contributor.author González Candelas, Fernando
dc.date.accessioned 2010-07-13T08:13:55Z
dc.date.available 2010-07-13T08:13:55Z
dc.date.issued 2007
dc.identifier.uri http://hdl.handle.net/10550/16001
dc.description.abstract Background A comprehensive evolutionary analysis of bacterial genomes implies to identify the hallmark of vertical and non-vertical signals and to discriminate them from the presence of mere phylogenetic noise. In this report we have addressed the impact of factors like the universal distribution of the genes, their essentiality or their functional role in the cell on the inference of vertical signal through phylogenomic methods. Results We have established that supermatrices derived from data sets composed mainly by genes suspected to be essential for bacterial cellular life perform better on the recovery of vertical signal than those composed by widely distributed genes. In addition, we show that the "Transcription" category of genes seems to harbor a better vertical signal than other functional categories. Moreover, the "Poorly characterized" category performs better than other categories related with metabolism or cellular processes. Conclusion From these results we conclude that different data sets allow addressing different questions in phylogenomic analyses. The vertical signal seems to be more present in essential genes although these also include a significant degree of incongruence. From a functional perspective, as expected, informational genes perform better than operational ones but we have also shown the surprising behavior of poorly annotated genes, which points to their importance in the genome evolution of bacteria. en
dc.language.iso en en
dc.relation http://www.biomedcentral.com/content/pdf/1471-2148-7-S1-S7.pdf en
dc.source Comas, I.; Moya, A.; González-Candelas, F. Phylogenetic signal and functional categories in Proteobacteria genomes. En BMC Evolutionary Biology 2007, 7(Suppl 1):S7 en
dc.subject Phylogenetic signal; Proteobacteria genomes; Phylogenomic methods. en
dc.title Phylogenetic signal and functional categories in Proteobacteria genomes en
dc.type info:eu-repo/semantics/article en
dc.type info:eu-repo/semantics/publishedVersion en
dc.subject.unesco UNESCO::CIENCIAS DE LA VIDA::Biología celular::Citogenética en
dc.identifier.doi 10.1186/1471-2148-7-S1-S7 en
dc.description.private gonzalef@uv.es; coesi@uv.es; moya@uv.es en
dc.identifier.idgrec 034956 en

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