DPPP01000102.1

Detailed information

Microorganism
Rhodocyclaceae bacterium

Taxonomy
Phylum : Proteobacteria Class : Betaproteobacteria Order : Rhodocyclales Family : Rhodocyclaceae Genus : nan

Isolation Source
nan

Enzyme Name
Hydroxylamine reductase

Protein Information
Pro_GenBank I.D： HCX33053.1 Length：562 aa Protein FASTA_sequence: Link

Information about Article
Reference：Parks et al., 2018 Title：A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life. Pubmed ID：30148503 Pubmed link： Link Full research link： Link Abstract：Taxonomy is an organizing principle of biology and is ideally based on evolutionary relationships among organisms. Development of a robust bacterial taxonomy has been hindered by an inability to obtain most bacteria in pure culture and, to a lesser extent, by the historical use of phenotypes to guide classification. Culture-independent sequencing technologies have matured sufficiently that a comprehensive genome-based taxonomy is now possible. We used a concatenated protein phylogeny as the basis for a bacterial taxonomy that conservatively removes polyphyletic groups and normalizes taxonomic ranks on the basis of relative evolutionary divergence. Under this approach, 58% of the 94,759 genomes comprising the Genome Taxonomy Database had changes to their existing taxonomy. This result includes the description of 99 phyla, including six major monophyletic units from the subdivision of the Proteobacteria, and amalgamation of the Candidate Phyla Radiation into a single phylum. Our taxonomy should enable improved classification of uncultured bacteria and provide a sound basis for ecological and evolutionary studies.

Reference：Parks et al., 2018
Title：A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life.
Pubmed ID：30148503
Pubmed link： Link
Full research link： Link
Abstract：Taxonomy is an organizing principle of biology and is ideally based on evolutionary relationships among organisms. Development of a robust bacterial taxonomy has been hindered by an inability to obtain most bacteria in pure culture and, to a lesser extent, by the historical use of phenotypes to guide classification. Culture-independent sequencing technologies have matured sufficiently that a comprehensive genome-based taxonomy is now possible. We used a concatenated protein phylogeny as the basis for a bacterial taxonomy that conservatively removes polyphyletic groups and normalizes taxonomic ranks on the basis of relative evolutionary divergence. Under this approach, 58% of the 94,759 genomes comprising the Genome Taxonomy Database had changes to their existing taxonomy. This result includes the description of 99 phyla, including six major monophyletic units from the subdivision of the Proteobacteria, and amalgamation of the Candidate Phyla Radiation into a single phylum. Our taxonomy should enable improved classification of uncultured bacteria and provide a sound basis for ecological and evolutionary studies.