Name: Clostridioides difficile 1470
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 23854

Type strain:

Species: Clostridioides difficile

Strain Designation: 1470

Culture col. no.: DSM 27544, ATCC 43598, NCTC 13569, CCUG 37782

Strain history: <- P. Bracegirdle, Health Protection Agency Culture Collections, Salisbury, United Kingdom; NCTC 13569

NCBI tax ID(s): 1496 (species)

Special Collections

Other strains from Clostridioides difficile

Section

When using BacDive for research please cite our paper

Clostridioides difficile 1470 is an anaerobe, spore-forming, mesophilic human pathogen that was isolated from Faeces, Human .

rod-shaped
spore-forming
anaerobe
human pathogen
mesophilic
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Peptostreptococcaceae*
	Genus	*Clostridioides*
	Species	**Clostridioides difficile**
	Full Scientific Name (LPSN)	Clostridioides difficile (Hall and O'Toole 1935) Lawson et al. 2016

	Synonym	"Peptoclostridium* difficile"*
	Synonym	"Bacillus* difficilis"*
	Synonym	Clostridium difficile

Information on morphological and physiological properties Morphology

[Ref.: #68367]	Gram stain	positive * from API 20A

[Ref.: #68367]	Cell shape	rod-shaped * from API 20A

[Ref.: #20943]	Type of hemolysis	gamma
[Ref.: #20943]	Incubation period	1-2 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20943]

Culture medium

WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339)

[Ref.: #20943]

Culture medium growth

[Ref.: #20943]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20943]

Culture medium composition

expand / minimize

[Ref.: #20943]

Culture medium

CHOPPED MEAT MEDIUM (DSMZ Medium 78)

[Ref.: #20943]

Culture medium growth

[Ref.: #20943]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20943]

Culture medium composition

expand / minimize

[Ref.: #20943]

Culture medium

FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203)

[Ref.: #20943]

Culture medium growth

[Ref.: #20943]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20943]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #20943]			growth	37 °C
[Ref.: #53868]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #20943]	Oxygen tolerance	anaerobe
[Ref.: #53868]	Oxygen tolerance	anaerobe
[Ref.: #125439]	Oxygen tolerance	facultative anaerobe Confidence in %96

[Ref.: #68367]

Ability of spore formation

yes * from API 20A

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #68367]	cellobiose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68367]	D-xylose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	esculin ChEBI	+	hydrolysis	* from API 20A
[Ref.: #68367]	glycerol ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	L-arabinose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #68367]	L-rhamnose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	lactose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	maltose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #68367]	raffinose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68367]	salicin ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	sorbitol ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	sucrose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	trehalose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A, API 20A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A, API 20A
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68380]		indole ChEBI	no	* from API rID32A, API 20A

	Physiological tests	Metabolite	Indole test
[Ref.: #68380]		indole ChEBI	-	* from API rID32A, API 20A

	Enzyme	Enzyme activity	EC number
[Ref.: #68380]	alanine arylamidase	-	3.4.11.2	* from API rID32A
[Ref.: #68380]	alkaline phosphatase	-	3.1.3.1	* from API rID32A
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #68380]	alpha-fucosidase	-	3.2.1.51	* from API rID32A
[Ref.: #68380]	alpha-galactosidase	-	3.2.1.22	* from API rID32A
[Ref.: #68380]	alpha-glucosidase	-	3.2.1.20	* from API rID32A
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #68380]	beta-galactosidase	-	3.2.1.23	* from API rID32A
[Ref.: #68380]	beta-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #68367]	beta-glucosidase	+	3.2.1.21	* from API 20A
[Ref.: #68380]	beta-glucosidase	-	3.2.1.21	* from API rID32A
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A
[Ref.: #20943]	catalase	+	1.11.1.6
[Ref.: #68367]	catalase	+	1.11.1.6	* from API 20A
[Ref.: #20943]	cytochrome-c oxidase	-	1.9.3.1
[Ref.: #68380]	glutamate decarboxylase	-	4.1.1.15	* from API rID32A
[Ref.: #68380]	glutamyl-glutamate arylamidase	-		* from API rID32A
[Ref.: #68380]	glycin arylamidase	-		* from API rID32A
[Ref.: #68380]	histidine arylamidase	-		* from API rID32A
[Ref.: #68380]	L-arginine arylamidase	-		* from API rID32A
[Ref.: #68380]	leucine arylamidase	+	3.4.11.1	* from API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68380]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API rID32A
[Ref.: #68380]	proline-arylamidase	+	3.4.11.5	* from API rID32A
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #68380]	serine arylamidase	-		* from API rID32A
[Ref.: #68380]	tryptophan deaminase	-	4.1.99.1	* from API rID32A
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A, API 20A
	Only first 10 entries are displayed. Click here to see all.

API® 20A:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Indole productionIND	Urease/urea hydrolysisURE	Acid from D-glucoseGLU	Acid from D-mannitolMAN	Acid from lactoseLAC	Acid from sucroseSAC	Acid from maltoseMAL	Acid from salicinSAL	Acid from D-xyloseXYL	Acid from L-arabinoseARA	Gelatinase/gelatin hydrolysisGEL	Esculin hydrolysis/beta-glucosidaseESC	Acid from glycerolGLY	Acid from cellobioseCEL	Acid from D-mannoseMNE	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from sorbitolSOR	Acid from L-rhamnoseRHA	Acid from trehaloseTRE	CatalaseCAT	Spores presentSPOR	GramGRAM	Morphology coccus="+" rod="-"COCC
[Ref.: #20943]	2357	-	-	+	+	-	-	-	-	-	-	+	+	-	-	+	+	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #20943]	2356	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	+	+	+	-

API® rID32A:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Urease/urea hydrolysisURE	Arginine dihydrolaseADH (Arg)	alpha-Galactosidasealpha GAL	beta-Galactosidasebeta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha-Glucosidasealpha GLU	beta-Glucosidasebeta GLU	alpha-Arabinosidasealpha ARA	beta-Glucuronidasebeta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	Fermentation of D-mannoseMNE	Fermentation of raffinoseRAF	Glutamate decarboxylaseGDC	alpha-Fucosidasealpha FUC	Reduction of nitrateNIT	Indole productionIND	Alkaline phosphatasePAL	L-arginine arylamidaseArgA	Proline arylamidaseProA	Leucyl glycin arylamidaseLGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	Pyrrolidonyl arylamidasePyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
[Ref.: #20943]	13815	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	+/-	+	-	+/-	-	-	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #20943]	Sample type/isolated from	Faeces, Human (faeces of asymptomatic neonate)
[Ref.: #20943]	Country	Belgium
[Ref.: #20943]	Country ISO 3 Code	BEL
[Ref.: #20943]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Host	#Human	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #20943]	Pathogenicity (human)	yes
[Ref.: #20943]	Pathogenicity (animal)	yes
[Ref.: #20943]	Biosafety level	2	Risk group (German classification) According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Clostridioides difficile 1470	GCA_900243225	scaffold	GenBank ENA	1496 tax ID	*
[Ref.: #66792]	Clostridioides difficile ATCC 43598	GCA_008868185	contig	GenBank ENA	1496 tax ID	*
[Ref.: #66792]	Clostridioides difficile strain ATCC 43598	1496.4858	wgs	PATRIC	1496 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Clostridioides difficile 1470 NCBI: GCA_900243225.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	58.24	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	yes	88.334	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	97.211	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	yes	67.152	yes
[Ref.: #125438]	thermophile	thermophilicⓘ	no	89.04	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	75.653	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Clostridioides difficile 1470 NCBI: GCA_900243225
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	74.5
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	78.3
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	83.2
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	facultative anaerobe	96

Availability in culture collections External links

[Ref.: #20943]

Culture collection no.

DSM 27544, ATCC 43598, NCTC 13569, CCUG 37782

Literature:

Topic	Title	Authors	Journal	DOI	Year
Pathogenicity	Disinfectant wipes transfer Clostridioides difficile spores from contaminated surfaces to uncontaminated surfaces during the disinfection process.	Nkemngong CA, Chaggar GK, Li X, Teska PJ, Oliver HF	Antimicrob Resist Infect Control	10.1186/s13756-020-00844-0	2020	*
Pathogenicity	Evaluation of the illumigene C. difficile assay for toxigenic Clostridium difficile detection: a prospective study of 302 consecutive clinical fecal samples.	Hong G, Park KS, Ki CS, Lee NY	Diagn Microbiol Infect Dis	10.1016/j.diagmicrobio.2014.08.014	2014	*
Enzymology	In vitro production of Clostridium difficile spores for use in the efficacy evaluation of disinfectants: a precollaborative investigation.	Hasan JA, Japal KM, Christensen ER, Samalot-Freire LC	J AOAC Int		2011	*

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 )

#20943

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27544

#53868 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 37782

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#68367

Automatically annotated from API 20A .

#68380

Automatically annotated from API rID32A .

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Clostridioides difficile in external resources:
SILVA
BRENDA
PANGAEA
GBIF