Proposal for a new classification of a deep branching bacterial phylogenetic lineage: transfer of Coprothermobacter proteolyticus and Coprothermobacter platensis to Coprothermobacteraceae fam. nov., within Coprothermobacterales ord. nov., Coprothermobacteria classis nov. and Coprothermobacterota phy

  title={Proposal for a new classification of a deep branching bacterial phylogenetic lineage: transfer of Coprothermobacter proteolyticus and Coprothermobacter platensis to Coprothermobacteraceae fam. nov., within Coprothermobacterales ord. nov., Coprothermobacteria classis nov. and Coprothermobacterota phy},
  author={Mar{\'i}a Elisa Pavan and Esteban E. Pavan and Stefanie P. Glaeser and Claudia Etchebehere and Peter K{\"a}mpfer and M. Julia Pettinari and Nancy I. L{\'o}pez},
  journal={International journal of systematic and evolutionary microbiology},
  volume={68 5},
The genus Coprothermobacter (initially named Thermobacteroides) is currently placed within the phylum Firmicutes. Early 16S rRNA gene based phylogenetic studies pointed out the great differences between Coprothermobacter and other members of the Firmicutes, revealing that it constitutes a new deep branching lineage. Over the years, several studies based on 16S rRNA gene and whole genome sequences have indicated that Coprothermobacter is very distant phylogenetically to all other bacteria… 

Figures from this paper

Description of Biomaibacter acetigenes gen. nov., sp. nov., and proposal of Thermosediminibacterales ord. nov. containing two novel families of Tepidanaerobacteraceae fam. nov. and Thermosediminibacteraceae fam. nov.

The results of phylogenetic and phylogenomic analyses indicated that the genera Biomaibacter, Caldanaerovirga, Fervidicola, Tepidanaerobacter, Thermosediminibacteria, Thermovenabulum and Thermovorax formed a clade with high bootstrap support distinguishing to other taxon within the order ThermoanaerOBacterales.

Multidomain ribosomal protein trees and the planctobacterial origin of neomura (eukaryotes, archaebacteria)

Unique presence of key pre-neomuran characters favours Planctobacteria only as ancestral to neomura, which apparently arose by coevolutionary repercussions (explained here in detail, including RP replacement) of simultaneous outer membrane and murein loss.

Zhaonella formicivorans gen. nov., sp. nov., an anaerobic formate-utilizing bacterium isolated from Shengli oilfield, and proposal of four novel families and Moorellales ord. nov. in the phylum Firmicutes.

A novel obligately anaerobic, thermophilic and formate-utilizing bacterium K32T was isolated from Shengli oilfield of China and Zhaonella formicivorans gen. nov., sp.

Culicoidibacter larvae gen. nov., sp. nov., from the gastrointestinal tract of the biting midge (Culicoides sonorensis) larva, belongs to a novel lineage Culicoidibacteraceae fam. nov., Culicoidibacterales ord. nov. and Culicoidibacteria classis nov. of the phylum Firmicutes.

Results indicate that strain CS-1T belongs to the phylum Firmicutes and represents a new species of a novel genus, family, order and class of Culicoidibacter larvae gen. nov.

Using taxon resampling to identify species with contrasting phylogenetic signals: an empirical example in Terrabacteria

It is found that trees with fewer species were more dissimilar to the tree produced from the full dataset, and even within scenarios consisting of the same number of taxa, the species used strongly affected phylogenetic stability.

Choice of species affects phylogenetic stability of deep nodes: an empirical example in Terrabacteria

The results suggest that a systematic evaluation of phylogenetic stability through taxon resampling is advisable even for very large datasets, because the effect of taxon sampling in one group does not seem to be buffered by the presence of many other clades, making this issue relevant even to very large dataset.

Microbial Life in the Deep Subsurface Aquifer Illuminated by Metagenomics

The availability of buried organic matter of Mesozoic marine sediments, long-term recharge of the aquifer with meteoric waters and its spatial heterogeneity provided the conditions for the development of microbial communities, taxonomically and functionally more diverse than those found in oligotrophic underground ecosystems.

Identity and hydrocarbon degradation activity of enriched microorganisms from natural oil and asphalt seeps in the Kurdistan Region of Iraq (KRI).

It is suggested, that although not representing abundant populations in situ, studies of the cultured close relatives of these taxa will reveal an unrecognized potential for anaerobic hydrocarbon degradation, possibly involving poorly characterized mechanisms.

Valid publication of the names of forty-two phyla of prokaryotes.

  • A. OrenG. Garrity
  • Biology
    International journal of systematic and evolutionary microbiology
  • 2021
Names and formal descriptions of 42 phyla to effect valid publication of their names, based on genera as the nomenclatural types are presented.



Evaluation of the phylogenetic position of the sulfate-reducing bacterium Thermodesulfovibrio yellowstonii (phylum Nitrospirae) by means of gene order data from completely sequenced genomes.

  • T. Kunisawa
  • Biology
    International journal of systematic and evolutionary microbiology
  • 2010
The phylogenetic placement of Thermodesulfovibrio yellowstonii was investigated on the basis of gene order data from completely sequenced bacterial genomes and three arrangements that suggest gene translocations were identified that are likely to have occurred in a common ancestor of T.yellowstonii.

Phylogenomic evaluation of members above the species level within the phylum Firmicutes based on conserved proteins.

The phylogeny deduced based on concatenated proteins provides significant basis for re-classifying members in this phylum Firmicutes and indicates that the genera Coprothermobacter and Thermodesulfobium represent two new phyla.

Evolutionary relationships of completely sequenced Clostridia species and close relatives.

  • T. Kunisawa
  • Biology
    International journal of systematic and evolutionary microbiology
  • 2015
It is suggested that Coprothermobacter proteolyticus and Thermodesulfobium narugense should be placed outside the phylum Firmicutes, on the basis of the Bayesian tree and gene arrangement comparison.

Phylogenetic analysis of the bacterial genus Thermobacteroides indicates an ancient origin of Thermobacteroides proteolyticus

The phylogenetic position of two validly described species of Thermobacteroides, T. acetoethylicus and T. proteolyticus, was determined by sequence analysis of their 16S rDNA and indicated that the two species belong to phylogenetically well separated phyla.

Transfer of the Type Species of the Genus Thermobacteroides to the Genus Thermoanaerobacter as Thermoanaerobacter acetoethylicus(Ben-Bassat and Zeikus 1981) comb. nov., Description of Coprothermobacter gen. nov., and Reclassification of Thermobacteroides proteolyticus as Coprothermobacter proteolyti

Phylogenetic and phenotypic evidence demonstrates the taxonomic heterogeneity of the genus Thermobacteroides and indicates a close relationship between Thermobacteroides acetoethylicus and members of

A novel lineage of sulfate-reducing microorganisms: Thermodesulfobiaceae fam. nov., Thermodesulfobium narugense, gen. nov., sp. nov., a new thermophilic isolate from a hot spring

A novel type of a sulfate-reducing microorganism, represented by strain Na82T, was isolated from a hot spring in Narugo, Japan. The isolate was a moderate thermophilic autotroph that was able to grow

PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes

PhyloPhlAn, a new method to assign microbial phylogeny and putative taxonomy using >400 proteins optimized from among 3,737 genomes, is reported, which measures the sequence diversity of all clades, classifies genomes from deep-branching candidate divisions through closely-related subspecies, and improves consistency between phylogenetic and taxonomic groupings.

On the chimeric nature, thermophilic origin, and phylogenetic placement of the Thermotogales

The genome sequences of 4 additional members of the Thermotogales are presented and Amino acid compositions of reconstructed ancestral sequences from 423 gene families suggest an origin of this gene pool even more thermophilic than extant members of this order, followed by adaptation to lower growth temperatures within this order.

Caldisericum exile gen. nov., sp. nov., an anaerobic, thermophilic, filamentous bacterium of a novel bacterial phylum, Caldiserica phyl. nov., originally called the candidate phylum OP5, and description of Caldisericaceae fam. nov., Caldisericales ord. nov. and Caldisericia classis nov.

The results of phylogenetic analysis based on the 16S rRNA gene sequence and the characterization of the strain in this study, and the name Caldisericum exile gen. nov. for strain AZM16c01(T) are proposed, which is a proposed new phylum name for the candidate phylum OP5.