title: Whole-genome comparison clarifies close phylogenetic relationships between the phyla Dictyoglomi and Thermotogae.
abstract: The anaerobic thermophilic bacterial genus Dictyoglomus is characterized by the ability to produce useful enzymes such as amylase, mannanase, and xylanase. Despite the significance, the phylogenetic position of Dictyoglomus has not yet been clarified, since it exhibits ambiguous phylogenetic positions in a single gene sequence comparison-based analysis. The number of substitutions at the diverging point of Dictyoglomus is insufficient to show the relationships in a single gene comparison-based analysis. Hence, we studied its evolutionary trait based on whole-genome comparison. Both gene content and orthologous protein sequence comparisons indicated that Dictyoglomus is most closely related to the phylum Thermotogae and it forms a monophyletic group with Coprothermobacter proteolyticus (a constituent of the phylum Firmicutes) and Thermotogae. Our findings indicate that C. proteolyticus does not belong to the phylum Firmicutes and that the phylum Dictyoglomi is not closely related to either the phylum Firmicutes or Synergistetes but to the phylum Thermotogae.
authors.affiliation: Agricultural Bioinformatics Research Unit, Graduate School of Agricultural and Life Sciences, University of Tokyo, Japan. hnishida@iu.a.u-tokyo.ac.jp
authors.forename: Hiromi
authors.initials: H
authors.lastname: Nishida
authors.forename: Teruhiko
authors.initials: T
authors.lastname: Beppu
authors.forename: Kenji
authors.initials: K
authors.lastname: Ueda
mesh_terms: D019943:Amino Acid Substitution; D001419:Bacteria / Q000145:classification* / Q000235:genetics; D001426:Bacterial Proteins / Q000235:genetics; D016000:Cluster Analysis; D019143:Evolution, Molecular; D005798:Genes, Bacterial; D020459:Genes, rRNA; D016680:Genome, Bacterial; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D016415:Sequence Alignment; D020539:Sequence Analysis, Protein
chemical_list: D001426:Bacterial Proteins; D012336:RNA, Ribosomal, 16S