Clostridioides difficile (JCM 5258)

Name: Clostridioides difficile (JCM 5258)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 165140

Type strain

Culture col. no. JCM 5258

NCBI tax ID(s) 1496

Special Collections JCM

History JCM <-- M. Seki <-- Meiji Seika Kaisha, Ltd..

Links

Clostridioides difficile JCM 5258 is a bacterium of the family Peptostreptococcaceae.

16S sequence Bacteria

Name and taxonomic classification

SI-ID 393414

JCM 5258

@ref 20215

Last LPSN update 2026-05-29 08:45:34

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Peptostreptococcales

Family Peptostreptococcaceae

Genus Clostridioides

Species Clostridioides difficile

Full scientific name Clostridioides difficile (Hall and O'Toole 1935) Lawson et al. 2016

Synonyms (3)

"Peptoclostridium difficile"
"Bacillus difficilis"
Clostridium difficile

BacDive ID	Other strains from **Clostridioides difficile** (81)	Type strain
2582	C. difficile 1780, McClung 1780, 90556-M6S, 10008, DSM ... (type strain)
2583	C. difficile AA1, DSM 12056
2584	C. difficile A90, DSM 12057
22963	C. difficile R20291, DSM 27147, NCTC 13366
23853	C. difficile 630, DSM 27543, ATCC BAA-1382, NCTC 13307
23854	C. difficile 1470, DSM 27544, ATCC 43598, NCTC 13569, ...
23855	C. difficile 630 Delta erm, DSM 28645
134676	C. difficile CD196, CIP 107932
134703	C. difficile CIP 109239
135237	C. difficile W 1194, CIP 104903, ATCC 43594, CCUG 37779
135760	C. difficile CIP 110322
137137	C. difficile CIP 109238
137139	C. difficile CIP 109240, ATCC 43255, CCUG 19126, VPI 10463
138126	C. difficile 2149, CIP 104905, ATCC 43600, CCUG 37784
138128	C. difficile 545, CIP 104904, ATCC 43596, CCUG 37766
141963	C. difficile CCUG 8884
141965	C. difficile CCUG 9004
141966	C. difficile CCUG 9018
143578	C. difficile CCUG 20309
143948	C. difficile CCUG 22019
143949	C. difficile CCUG 22020
143950	C. difficile CCUG 22023
145666	C. difficile CCUG 29183
148544	C. difficile CCUG 35620
149446	C. difficile CCUG 37767
149447	C. difficile CCUG 37768
149448	C. difficile CCUG 37769
149449	C. difficile CCUG 37770
149450	C. difficile CCUG 37771
149451	C. difficile CCUG 37772
149452	C. difficile CCUG 37773
149453	C. difficile CCUG 37774
149454	C. difficile CCUG 37775
149455	C. difficile CCUG 37776
149456	C. difficile CCUG 37777
149457	C. difficile CCUG 37778
149458	C. difficile CCUG 37780, ATCC 43593
149459	C. difficile CCUG 37781, ATCC 43597
149460	C. difficile CCUG 37783, ATCC 43599
149461	C. difficile CCUG 37785, ATCC 43601
149462	C. difficile CCUG 37787, ATCC 43603
149536	C. difficile CCUG 37922
151958	C. difficile CCUG 45344
151959	C. difficile CCUG 45345
152338	C. difficile CCUG 46468
152339	C. difficile CCUG 46469
152340	C. difficile CCUG 46470
154467	C. difficile CCUG 53741
154468	C. difficile CCUG 53742
154474	C. difficile CCUG 53749
154520	C. difficile CCUG 54206
156075	C. difficile CCUG 60275, LBM 08.01.040
156076	C. difficile CCUG 60276, LBM 08.01.058
156768	C. difficile CCUG 64977
156771	C. difficile CCUG 65028
157662	C. difficile 4167/2013 1, DSM 27638
157663	C. difficile 4167/2013 2, DSM 27639
157664	C. difficile 4167/2013 3, DSM 27640
157665	C. difficile SC037-01-01, 6551/2013, DSM 28196
157666	C. difficile SC052-01-01, DSM 29688
157667	C. difficile SC009-01-01, DSM 29745
157668	C. difficile SC052-02-01, DSM 29747
157669	C. difficile CD-16-113, D/6474/2015, DSM 102978
157670	C. difficile 3525/15, Goe-91, DSM 105001
158911	C. difficile 3022, CD3022, DSM 101085
165126	C. difficile JCM 5243
165127	C. difficile JCM 5244
165128	C. difficile JCM 5245
165129	C. difficile JCM 5246
165130	C. difficile JCM 5247
165131	C. difficile JCM 5248
165132	C. difficile JCM 5249
165133	C. difficile JCM 5250
165134	C. difficile JCM 5251
165135	C. difficile JCM 5252
165136	C. difficile JCM 5253
165137	C. difficile JCM 5254
165138	C. difficile JCM 5256
165139	C. difficile JCM 5257
176413	C. difficile RT 023, DSM 102859
176414	C. difficile RT 127, DSM 102860

Morphology

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
67770	positive	growth	37

Physiology and metabolism

Isolation, sampling and environmental information

Taxonmaps

69479

Global distribution of 16S sequence AB632388 (>99% sequence identity) for Clostridioides difficile from Microbeatlas

Aquatic Samples	1013
Soil Samples	528
Animal Samples	37560
Plant Samples	192
Total Samples	39293

Interaction and safety

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	[Clostridium] difficile gene for 16S ribosomal RNA, partial sequence, strain: JCM 5258	AB632388	1464		1496

Genome-based predictions

Literature

References

#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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