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Taxonomy browser (Firmicutes)

Firmicutes

Taxonomy ID: 1239 (for references in articles please use NCBI:txid1239)
Scientific name: Firmicutes corrig. Gibbons and Murray 1978
Inherited blast name: bacteria
Rank: phylum
Genetic code: Translation table 11 (Bacterial, Archaeal and Plant Plastid)
Other names:
synonym: Bacillota
synonym: Bacillus/Clostridium group
synonym: Clostridium group firmicutes
synonym: Firmacutes
synonym: Low G+C firmicutes
synonym: clostridial firmicutes
synonym: Bacillaeota Oren et al. 2015
common name: low G+C Gram-positive bacteria
common name: low GC Gram+
blast name: firmicutes
Lineage( full )
cellular organisms; Bacteria; Terrabacteria group
   Entrez records   
Database name Subtree links Direct links
Nucleotide 9,760,043 1
Nucleotide EST 1,376 -
Nucleotide GSS 10,082 -
Protein 121,859,111 20,853
Structure 11,612 -
Genome 3,687 -
Popset 15,279 8,744
Conserved Domains 1,867 507
GEO Datasets 20,747 -
PubMed Central 247,236 15,406
Gene 2,419,921 -
SRA Experiments 238,159 148
GEO Profiles 151,987 -
Protein Clusters 214,957 4,278
Identical Protein Groups 25,221,230 23,409
Bio Project 23,229 10
Bio Sample 267,245 125
Bio Systems 155,977 -
Assembly 49,339 -
Probe 6,100 2
PubChem BioAssay 43,353 1
Taxonomy 81,218 1

Comments and References:

Bacteriological Code and rank "Phylum"
The International Code of Nomenclature of Bacteria (1990 Revision) does not recognize any rank higher than Class (Rule 5b) and the names of phyla are not to be regarded as having been validly published even though they may have been published in a validation or notification list, or in the Approved List of Bacterial Names.

Reference to PubMed documentAhmad S et al. (1999)
Ahmad, S., Selvapandiyan, A., and Bhatnagar, R.K. "A protein-based phylogenetic tree for gram-positive bacteria derived from hrcA, a unique heat-shock regulatory gene." Int. J. Syst. Bacteriol. (1999) 49:1387-1394.

Reference to PubMed documentAhmad S et al. (2000b)
Ahmad, S., Selvapandiyan, A., and Bhatnagar, R.K. "Phylogenetic analysis of gram-positive bacteria based on grpE, encoded by the dnaK operon." Int. J. Syst. Evol. Microbiol. (2000) 50:1761-1766.

Nota BeneBMSB 2nd ed. Taxonomic Outline
Garrity, G.M., and Holt, J.G. "Taxonomic Outline of the Archaea and Bacteria." In: Bergey's Manual of Systematic Bacteriology, 2nd ed., vol. 1 (The Archaea and the deeply branching and phototrophic Bacteria) (D.R. Boone and R.W. Castenholz, eds.), Springer-Verlag, New York (2001). pp. 155-166. [No PubMed record available.]

Nota BeneGibbons NE & Murray RGE (1978)
Gibbons, N.E., and Murray, R.G.E. "Proposals concerning the higher taxa of bacteria." Int. J. Syst. Bacteriol. (1978) 28:1-6. [No PubMed record available.]

Murray RGE (1984)
Murray, R.G.E. "The higher taxa, or, a place for everything...?" In: N.R. Krieg and J.G. Holt (eds.) Bergey's Manual of Systematic Bacteriology, vol. 1, The Williams & Wilkins Co., Baltimore (1984). pp. 31-34. [No PubMed record available.]

Reference to PubMed documentOren A et al. (2015)
Oren, A., da Costa, M.S., Garrity, G.M., Rainey, F.A., Rossello-Mora, R., Schink, B., Sutcliffe, I., Trujillo, M.E., and Whitman, W.B. "Proposal to include the rank of phylum in the International Code of Nomenclature of Prokaryotes." Int. J. Syst. Evol. Microbiol. (2015) 65:4284-4287.

Nota BeneSkerman VBD et al. (1980)
Skerman, V.B.D., McGowan, V., and Sneath, P.H.A. (editors). "Approved lists of bacterial names." Int. J. Syst. Bacteriol. (1980) 30:225-420. [No PubMed record available.]

Reference to PubMed documentWhitman WB et al. (2018)
Whitman, W.B., Oren, A., Chuvochina, M., da Costa, M.S., Garrity, G.M., Rainey, F.A., Rossello-Mora, R., Schink, B., Sutcliffe, I., Trujillo, M.E., and Ventura, S. "Proposal of the suffix -ota to denote phyla. Addendum to 'Proposal to include the rank of phylum in the International Code of Nomenclature of Prokaryotes'." Int. J. Syst. Evol. Microbiol. (2018) 68:967-969.

Reference to PubMed documentWoese CR et al. (1985)
Woese, C.R., Stackebrandt, E., Macke, T.J., and Fox, G.E. "A phylogenetic definition of the major eubacterial taxa." Syst. Appl. Microbiol. (1985) 6:143-151.

Reference to PubMed documentWolf M et al. (2004)
Wolf, M., Muller, T., Dandekar, T., and Pollack, J.D. "Phylogeny of Firmicutes with special reference to Mycoplasma (Mollicutes) as inferred from phosphoglycerate kinase amino acid sequence data." Int. J. Syst. Evol. Microbiol. (2004) 54:871-875. Published online 12 December 2003: DOI 10.1099/ijs.0.02868-0

Reference to PubMed documentZhang W & Lu Z (2015)
Zhang, W., and Lu, Z. "Phylogenomic evaluation of members above the species level within the phylum Firmicutes based on conserved proteins." Environ. Microbiol. Rep. (2015) 7:273-281.


External Information Resources (NCBI LinkOut)

LinkOut Subject LinkOut Provider
Firmicutes taxonomy/phylogenetic Encyclopedia of life
7 records from this provider organism-specific Integrated Microbial Genomes
Firmicutes taxonomy/phylogenetic Lifemap
LBSN taxonomy/phylogenetic List of Bacterial names with Standing in Nomenclature
Firmicutes sp. (taxon passport) culture/stock collections StrainInfo
Firmicutes taxonomy/phylogenetic World Register of Marine Species
Wikipedia taxonomy/phylogenetic iPhylo
Notes:
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