Taxogenomics of the order Chlamydiales.

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Etat: Public
Version: Author's accepted manuscript
ID Serval
serval:BIB_AD041EB6E92F
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Institution
Titre
Taxogenomics of the order Chlamydiales.
Périodique
International Journal of Systematic and Evolutionary Microbiology
Auteur(s)
Pillonel T., Bertelli C., Salamin N., Greub G.
ISSN
1466-5034 (Electronic)
ISSN-L
1466-5026
Statut éditorial
Publié
Date de publication
2015
Peer-reviewed
Oui
Volume
65
Numéro
Pt 4
Pages
1381-1393
Langue
anglais
Résumé
Bacterial classification is a long-standing problem for taxonomists and species definition itself is constantly debated among specialists. The classification of strict intracellular bacteria such as members of the order Chlamydiales mainly relies on DNA- or protein-based phylogenetic reconstructions because these organisms exhibit few phenotypic differences and are difficult to culture. The availability of full genome sequences allows the comparison of the performance of conserved protein sequences to reconstruct Chlamydiales phylogeny. This approach permits the identification of markers that maximize the phylogenetic signal and the robustness of the inferred tree. In this study, a set of 424 core proteins was identified and concatenated to reconstruct a reference species tree. Although individual protein trees present variable topologies, we detected only few cases of incongruence with the reference species tree, which were due to horizontal gene transfers. Detailed analysis of the phylogenetic information of individual protein sequences (i) showed that phylogenies based on single randomly chosen core proteins are not reliable and (ii) led to the identification of twenty taxonomically highly reliable proteins, allowing the reconstruction of a robust tree close to the reference species tree. We recommend using these protein sequences to precisely classify newly discovered isolates at the family, genus and species levels.
Pubmed
Web of science
Open Access
Oui
Création de la notice
20/07/2015 10:25
Dernière modification de la notice
20/08/2019 15:16
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