55284 |
Notification of changes in taxonomic opinion previously published outside the IJSEM. Int. J. Syst. Evol. Microbiol. (2017) 67:2081-2086.
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1638 |
( 1998 )
Classification of heparinolytic bacteria into a new genus, Pedobacter, comprising four species: Pedobacter heparinus comb. nov., Pedobacter piscium comb. nov., Pedobacter africanus sp. nov. and Pedobacter saltans sp. nov. proposal of the family Sphingobacteriaceae fam. nov.
International journal of systematic bacteriology 48 Pt 1 (N/A)
PMID : 9542086
DOI : 10.1099/00207713-48-1-165
Abstract >>
Sixteen heparinase-producing isolates, related to Sphingobacterium heparinum, were grouped into three major clusters by SDS-PAGE and DNA-rRNA hybridizations. Based on a polyphasic approach, it was shown that isolates of two of these clusters and S. heparinum species belong to a new genus for which the name Pedobacter is proposed. The genus consists of Pedobacter heparinus comb. nov. (formerly Sphingobacterium heparinum), which is the type species, Pedobacter piscium comb. nov. (formerly Sphingobacterium piscium), Pedobacter africanus sp. nov. and Pedobacter saltans sp. nov. and four as-yet-unnamed DNA hybridization groups. All the previously named taxa can be discriminated by phenotypic features, but have strong overall similarities with representatives of the genus Sphingobacterium and the misclassified species [Flexibacter] canadensis. All these organisms constitute a separate rRNA branch in rRNA superfamily V for which the family Sphingobacteriaceae fam. nov. is proposed.
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48660 |
Hahnke RL,
Meier-Kolthoff JP,
García-López M,
Mukherjee S,
Huntemann M,
Ivanova NN,
Woyke T,
Kyrpides NC,
Klenk HP,
Göker M,
( 2016 )
Genome-Based Taxonomic Classification of Bacteroidetes.
Frontiers in microbiology 7 (N/A)
PMID : 28066339
DOI : 10.3389/fmicb.2016.02003
PMC : PMC5167729
Abstract >>
The bacterial phylum Bacteroidetes, characterized by a distinct gliding motility, occurs in a broad variety of ecosystems, habitats, life styles, and physiologies. Accordingly, taxonomic classification of the phylum, based on a limited number of features, proved difficult and controversial in the past, for example, when decisions were based on unresolved phylogenetic trees of the 16S rRNA gene sequence. Here we use a large collection of type-strain genomes from Bacteroidetes and closely related phyla for assessing their taxonomy based on the principles of phylogenetic classification and trees inferred from genome-scale data. No significant conflict between 16S rRNA gene and whole-genome phylogenetic analysis is found, whereas many but not all of the involved taxa are supported as monophyletic groups, particularly in the genome-scale trees. Phenotypic and phylogenomic features support the separation of Balneolaceae as new phylum Balneolaeota from Rhodothermaeota and of Saprospiraceae as new class Saprospiria from Chitinophagia. Epilithonimonas is nested within the older genus Chryseobacterium and without significant phenotypic differences; thus merging the two genera is proposed. Similarly, Vitellibacter is proposed to be included in Aequorivita. Flexibacter is confirmed as being heterogeneous and dissected, yielding six distinct genera. Hallella seregens is a later heterotypic synonym of Prevotella dentalis. Compared to values directly calculated from genome sequences, the G+C content mentioned in many species descriptions is too imprecise; moreover, corrected G+C content values have a significantly better fit to the phylogeny. Corresponding emendations of species descriptions are provided where necessary. Whereas most observed conflict with the current classification of Bacteroidetes is already visible in 16S rRNA gene trees, as expected whole-genome phylogenies are much better resolved.
Keyword | MeSH Terms |
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
Bacteroidaeota-Rhodothermaeota-Balneolaeota-Chlorobaeota superphylum
G+C content
genome BLAST distance phylogeny
gliding motility
gut microbiome
marine microbiology
one thousand microbial genomes project
phylogenetic classification
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