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Taxonomy browser (Clostridioides difficile)

Clostridioides difficile

Taxonomy ID: 1496 (for references in articles please use NCBI:txid1496)
current name
Clostridioides difficile (Hall and O'Toole 1935) Lawson et al. 2016
type strain of Clostridioides difficile: CGMCC:1.2184, ATCC:9689, BCRC:10642, CCUG:4938, CIP:104282, DSM:1296, JCM:1296, BCCM/LMG:15861, NCIMB:10666, NCTC:11209
homotypic genbank synonym:
Clostridium difficile (Hall and O'Toole 1935) Prevot 1938 (Approved Lists 1980), nom. approb. 1)
homotypic synonym:
"Bacillus difficilis" Hall and O'Toole 1935, effective name 2)
"Peptoclostridium difficile" Yutin and Galperin 2013, effective name 2)
includes:
Clostridium sp. HMSC19D05
NCBI BLAST name: firmicutes
Rank: species
Genetic code: Translation table 11 (Bacterial, Archaeal and Plant Plastid)
Lineage( full )
cellular organisms; Bacteria; Terrabacteria group; Firmicutes; Clostridia; Eubacteriales; Peptostreptococcaceae; Clostridioides
   Entrez records   
Database name Subtree links Direct links Links from type
Nucleotide 1,224,009 1,134,168 251
Protein 7,250,085 6,368,781 -
Structure 231 105 -
Genome 1 1 -
Popset 128 128 -
Conserved Domains 5 3 -
GEO Datasets 807 561 -
PubMed Central 26,805 26,805 -
Gene 27,114 11,578 -
SRA Experiments 24,177 23,557 -
Protein Clusters 3,929 3,929 -
Identical Protein Groups 634,352 593,413 -
Bio Project 801 494 -
Bio Sample 29,143 28,406 12
Bio Systems 1,304 414 -
Assembly 12,302 11,870 3
Genetic Testing Registry 2 2 -
Probe 15 15 -
PubChem BioAssay 824 792 -
Taxonomy 296 1 -

Notes:

Comments and References:

Hall IC & O'Toole E (1935)
Hall, I.C., and O'Toole, E. "Intestinal flora in newborn infants with a description of a new pathogenic anaerobe, Bacillus difficilis." Am. J. Dis. Child. (1935) 49:390-402. [No PubMed record available.]
Lawson PA et al. (2016)
Lawson, P.A., Citron, D.M., Tyrrell, K.L., and Finegold, S.M. "Reclassification of Clostridium difficile as Clostridioides difficile (Hall and O'Toole 1935) Prevot 1938." Anaerobe (2016) 40:95-99.
Prevot AR (1938b)
Prevot, A.R. "Etudes de systematique bacterienne. IV. Critique de la conception actuelle du genre Clostridium." Ann. Inst. Pasteur (Paris) (1938) 61:72-91. [No PubMed record available.]
Skerman VBD et al. (1980) (Clostridium difficile)
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.
VALIDATION LIST No. 171 (2016), other link:https://ijs.microbiologyresearch.org/content/journal/ijsem/10.1099/ijsem.0.001585
Validation List No. 171: "List of new names and new combinations previously effectively, but not validly, published." Int. J. Syst. Evol. Microbiol. (2016) 66:3761-3764.
Yutin N & Galperin MY (2013)
Yutin, N., and Galperin, M.Y. "A genomic update on clostridial phylogeny: Gram-negative spore formers and other misplaced clostridia." Environ. Microbiol. (2013) 15:2631-2641.

External Information Resources (NCBI LinkOut)

LinkOut Subject LinkOut Provider
Clostridioides difficile meta-databases BacDive
6 records from this provider organism-specific BioCyc
Clostridium difficile (Hall and O'Toole 1935) PrA%A9vot 1938 (Approved Lists 1980) taxonomy/phylogenetic Encyclopedia of life
30 records from this provider organism-specific Genomes On Line Database
Show Biotic Interactions taxonomy/phylogenetic Global Biotic Interactions
Clostridium difficile culture/stock collections Global Catalogue of Microorganisms
Related Immune Epitope Information gene/protein/disease-specific Immune Epitope Database and Analysis Resource
143 records from this provider organism-specific Integrated Microbial Genomes
Clostridioides difficile taxonomy/phylogenetic Lifemap
Wikipedia taxonomy/phylogenetic iPhylo
Notes:
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Disclaimer: The NCBI taxonomy database is not an authoritative source for nomenclature or classification - please consult the relevant scientific literature for the most reliable information.

Reference: How to cite this resource - Schoch CL, et al. NCBI Taxonomy: a comprehensive update on curation, resources and tools. Database (Oxford). 2020: baaa062. PubMed: 32761142 PMC: PMC7408187.


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