Name: Clostridium sporogenes McClung 2004
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2710

Type strain:

Species: Clostridium sporogenes

Strain Designation: McClung 2004, 388

Culture col. no.: DSM 795, ATCC 3584, IFO 13950, NBRC 13950, NCIB 10696, JCM 1416, BCRC 11259, CCUG 15941, CECT 892, CIP 106155, LMG 8421, NCIMB 10696, NCTC 13020, AIP 10088

Strain history: CIP <- 1999, J.P. Carlier, Inst. Pasteur, Paris, France: strain AIP 10088 <- ATCC <- I.C. Hall <- E. Peterson

NCBI tax ID(s): 1509 (species)

SI-ID 13623

LMG 8421, ATCC 25762, ATCC 3584, IFO 13950, JCM 1416, NCIMB 10696, CCUG 15941, NCIB 10696, CIP 106155, CCRC 11259, CECT 892, NBRC 13950, BCRC 11259, CBMAI 691, CCT 7406, CCT 4390, CCT 1447, NCTC 13020, NCIM 5114, VTT E-001748, KCTC 56554, DSM 795

Other strains from Clostridium sporogenes

Section

Clostridium sporogenes McClung 2004 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from soil.

rod-shaped
spore-forming
anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Clostridiaceae*
	Genus	*Clostridium*
	Species	**Clostridium sporogenes**
	Full Scientific Name (LPSN)	Clostridium sporogenes (Metchnikoff 1908) Bergey et al. 1923 (Approved Lists 1980)

Synonym

"Bacillus sporogenes"

Information on morphological and physiological properties Morphology

[Ref.: #123271]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #123271]	Cell shape	rod-shaped
[Ref.: #68367]	Cell shape	rod-shaped * from API 20A

[Ref.: #123271]	Motility	no
[Ref.: #69480]	Motility	yes Confidence in %93.123

[Ref.: #123271]

Hemolysis ability

Information on culture and growth conditions Culture and growth conditions

[Ref.: #452]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #452]

Culture medium growth

[Ref.: #452]

Culture medium link

Medium recipe at MediaDive

[Ref.: #452]

Culture medium composition

expand / minimize

[Ref.: #452]

Culture medium

CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)

[Ref.: #452]

Culture medium growth

[Ref.: #452]

Culture medium link

Medium recipe at MediaDive

[Ref.: #452]

Culture medium composition

expand / minimize

[Ref.: #40299]

Culture medium

MEDIUM 20 - for Anaerobic bacteria

[Ref.: #40299]

Culture medium growth

[Ref.: #40299]

Culture medium composition

expand / minimize

[Ref.: #452]

Culture medium

FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a)

[Ref.: #452]

Culture medium growth

[Ref.: #452]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #123271]

Culture medium

CIP Medium 20

[Ref.: #123271]

Culture medium growth

[Ref.: #123271]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #452]	growth	37 °C
[Ref.: #40299]	growth	37 °C
[Ref.: #67770]	growth	37 °C

[Ref.: #452]	Temperature range	mesophilic
[Ref.: #40299]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #452]	Oxygen tolerance	anaerobe
[Ref.: #123271]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.999

[Ref.: #123271]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %91
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68367]	cellobiose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	D-glucose ChEBI	+	builds acid from	* from API 20A
[Ref.: #68367]	D-mannitol ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	D-mannose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	D-xylose ChEBI	-	builds acid from	* from API 20A
[Ref.: #123271]	esculin ChEBI	+	hydrolysis
[Ref.: #68367]	esculin ChEBI	+	hydrolysis	* from API 20A
[Ref.: #68367]	gelatin 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.: #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.: #68367]	melezitose ChEBI	-	builds acid from	* from API 20A
[Ref.: #123271]	nitrate ChEBI	-	reduction
[Ref.: #123271]	nitrate ChEBI	+	respiration
[Ref.: #123271]	nitrite ChEBI	+	reduction
[Ref.: #68367]	raffinose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	salicin 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.: #68367]	tryptophan ChEBI	-	energy source	* from API 20A
[Ref.: #68367]	urea ChEBI	-	hydrolysis	* from API 20A
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #123271]		indole ChEBI	no
[Ref.: #68367]		indole ChEBI	no	* from API 20A

	Physiological tests	Metabolite	Indole test
[Ref.: #68367]		indole ChEBI	-	* from API 20A

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #123271]	amylase	-
[Ref.: #123271]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68367]	beta-glucosidase	+	3.2.1.21	* from API 20A
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #123271]	caseinase	+	3.4.21.50
[Ref.: #123271]	catalase	-	1.11.1.6
[Ref.: #68367]	catalase	-	1.11.1.6	* from API 20A
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #123271]	DNase	+
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #123271]	gelatinase	+
[Ref.: #68367]	gelatinase	+		* from API 20A
[Ref.: #123271]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	-	3.4.11.1	* from API zym
[Ref.: #123271]	lipase	+
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #123271]	oxidase	-
[Ref.: #123271]	protease	-
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #123271]	tween esterase	-
[Ref.: #123271]	urease	-	3.5.1.5
[Ref.: #68367]	urease	-	3.5.1.5	* from API 20A
[Ref.: #68382]	valine arylamidase	-		* from API zym
	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.: #452]	2222	-	-	+	-	-	-	+	-	-	-	+	+	-	-	-	-	-	+/-	-	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #452]	2181	-	-	+	-	-	-	+	-	-	-	+	+	-	-	-	-	-	-	-	+	-	not determinedn.d.	not determinedn.d.	-

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #123271]	9293	-	-	+	+	-	-	-	-	+	-	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #452]	Sample type/isolated from	soil

[Ref.: #67770]	Sample type/isolated from	Soil

[Ref.: #123271]	Sample type/isolated from	Environment, Soil
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB595130 (>99% sequence identity) for Clostridium from Microbeatlas

Aquatic Samples	3962
Soil Samples	4923
Animal Samples	31978
Plant Samples	1109
Total Samples	41972

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

[Ref.: #452]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #123271]	Biosafety level	2	Risk group (French classification)

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

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #452]	Clostridium sporogenes rrn gene for 16S RNA	X68189	1510	ENA	1509 tax ID
[Ref.: #67770]	Clostridium sporogenes gene for 16S ribosomal RNA, partial sequence, strain: JCM 1416	AB595130	1473	ENA	1509 tax ID
[Ref.: #20218]	Clostridium sporogenes 16S ribosomal RNA	M59115	1463	ENA	1509 tax ID	*
[Ref.: #20218]	Clostridium sporogenes strain ATCC 3584 16S ribosomal RNA gene, partial sequence	DQ911258	318	ENA	1509 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Clostridium sporogenes DSM 795	GCA_000685115	contig	GenBank	1509 tax ID
[Ref.: #67770]	Clostridium sporogenes ATCC 3584	GCA_002008145	contig	GenBank	1509 tax ID
[Ref.: #67770]	Clostridium sporogenes NCTC13020	GCA_900461305	contig	GenBank	1509 tax ID
[Ref.: #66792]	Clostridium sporogenes strain ATCC 3584	1509.66	wgs	PATRIC	1509 tax ID	*
[Ref.: #66792]	Clostridium sporogenes strain DSM 795	1509.39	complete	PATRIC	1509 tax ID	*
[Ref.: #66792]	Clostridium sporogenes strain NCIMB 10696	1509.28	complete	PATRIC	1509 tax ID	*

[Ref.: #452]	GC-content	26.0 mol%
[Ref.: #67770]	GC-content	26 mol%	thermal denaturation, midpoint method (Tm)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Clostridium sporogenes DSM 795 NCBI: GCA_001020205.1
[Ref.: #69481]	spore-forming	yes	91	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Clostridium sporogenes DSM 795 NCBI: GCA_001020205.1
[Ref.: #69480]	motile	yes	82.447	no
[Ref.: #69480]	flagellated	yes	51.208	no
[Ref.: #69480]	gram-positive	yes	91.068	no
[Ref.: #69480]	anaerobic	yes	97.551	no
[Ref.: #69480]	aerobic	no	97.126	yes
[Ref.: #69480]	halophile	no	79.655	no
[Ref.: #69480]	spore-forming	yes	93.373	no
[Ref.: #69480]	thermophile	no	98.071	yes
[Ref.: #69480]	glucose-util	yes	85.039	no
[Ref.: #69480]	glucose-ferment	yes	64.373	no

Availability in culture collections External links

[Ref.: #452]

Culture collection no.

DSM 795, ATCC 3584, IFO 13950, NBRC 13950, NCIB 10696, JCM 1416, BCRC 11259, CCUG 15941, CECT 892, CIP 106155, LMG 8421, NCIMB 10696, NCTC 13020, AIP 10088

[Ref.: #72238]

SI-ID 13623

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Recombinant expression and characterisation of the oxygen-sensitive 2-enoate reductase from Clostridium sporogenes.	Mordaka PM, Hall SJ, Minton N, Stephens G	Microbiology (Reading)	10.1099/mic.0.000568	2017	*
Genetics	Complete Genome Sequence of the Nonpathogenic Soil-Dwelling Bacterium Clostridium sporogenes Strain NCIMB 10696.	Kubiak AM, Poehlein A, Budd P, Kuehne SA, Winzer K, Theys J, Lambin P, Daniel R, Minton NP	Genome Announc	10.1128/genomeA.00942-15	2015	*
Genetics	First Complete Genome Sequence of Clostridium sporogenes DSM 795T, a Nontoxigenic Surrogate for Clostridium botulinum, Determined Using PacBio Single-Molecule Real-Time Technology.	Nakano K, Terabayashi Y, Shiroma A, Shimoji M, Tamotsu H, Ashimine N, Ohki S, Shinzato M, Teruya K, Satou K, Hirano T	Genome Announc	10.1128/genomeA.00832-15	2015	*
Genetics	Genome sequence of Clostridium sporogenes DSM 795(T), an amino acid-degrading, nontoxic surrogate of neurotoxin-producing Clostridium botulinum.	Poehlein A, Riegel K, Konig SM, Leimbach A, Daniel R, Durre P	Stand Genomic Sci	10.1186/s40793-015-0016-y	2015	*
Pathogenicity	The differential effects of heat-shocking on the viability of spores from Bacillus anthracis, Bacillus subtilis, and Clostridium sporogenes after treatment with peracetic acid- and glutaraldehyde-based disinfectants.	March JK, Pratt MD, Lowe CW, Cohen MN, Satterfield BA, Schaalje B, O'Neill KL, Robison RA	Microbiologyopen	10.1002/mbo3.277	2015	*
Metabolism	Clostridium sporogenes delivers interleukin-12 to hypoxic tumours, producing antitumour activity without significant toxicity.	Zhang YL, Lu R, Chang ZS, Zhang WQ, Wang QB, Ding SY, Zhao W	Lett Appl Microbiol	10.1111/lam.12322	2014	*
Pathogenicity	Chemical composition and antimicrobial activity of Phyllanthus muellerianus (Kuntze) Excel essential oil.	Brusotti G, Cesari I, Gilardoni G, Tosi S, Grisoli P, Picco AM, Caccialanza G	J Ethnopharmacol	10.1016/j.jep.2012.05.032	2012	*
Pathogenicity	Reduction of Clostridium sporogenes spore outgrowth in natural sausage casings using nisin.	Wijnker JJ, Weerts EA, Breukink EJ, Houben JH, Lipman LJ	Food Microbiol	10.1016/j.fm.2011.01.009	2011	*
Pathogenicity	Antimicrobial properties of stem bark extracts from Phyllanthus muellerianus (Kuntze) Excell.	Brusotti G, Cesari I, Frassa G, Grisoli P, Dacarro C, Caccialanza G	J Ethnopharmacol	10.1016/j.jep.2011.03.042	2011	*
Metabolism	Regulation of neurotoxin production and sporulation by a Putative agrBD signaling system in proteolytic Clostridium botulinum.	Cooksley CM, Davis IJ, Winzer K, Chan WC, Peck MW, Minton NP	Appl Environ Microbiol	10.1128/AEM.03038-09	2010	*
Biotechnology	Growth of Listeria monocytogenes and Clostridium sporogenes in cottage cheese in modified atmosphere packaging.	Chen JH, Hotchkiss JH	J Dairy Sci	10.3168/jds.S0022-0302(93)77424-X	1993	*
Metabolism	Heterologous Gene Regulation in Clostridia: Rationally Designed Gene Regulation for Industrial and Medical Applications.	Zhang Y, Bailey TS, Kubiak AM, Lambin P, Theys J	ACS Synth Biol	10.1021/acssynbio.2c00401	2022	*
	Exosporial membrane plasticity of Clostridium sporogenes and Clostridium difficile.	Panessa-Warren BJ, Tortora GT, Warren JB	Tissue Cell	10.1016/s0040-8166(97)80031-6	1997	*

References

#452	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 795

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#40299 ; Curators of the CIP;

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68367

Automatically annotated from API 20A .

#68382

Automatically annotated from API zym .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#72238

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID13623.1 )

#123271 Collection of Institut Pasteur ; Curators of the CIP; CIP 106155
* These data were automatically processed and therefore are not curated

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Clostridium sporogenes DSM 795

Clostridium sporogenes DSM 795

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