Name: Clostridium butyricum Rowett
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 2563

Type strain:

Species: Clostridium butyricum

Strain Designation: Rowett

Culture col. no.: DSM 10702, ATCC 19398, IAM 14194, IFO 13949, JCM 1391, NBRC 13949, NCIMB 7423, NCTC 7423, VPI 3266, BCRC 11665, CCUG 4217, CECT 361, CIP 103309, CIP 109397, HAMBI 482, KCTC 1786, KCTC 1871, LMG 1217, NCFB 1713, VTT E-97426

Strain history: ATCC 19398 <-- NCTC 7423 <-- J. W. Howie strain Rowett.

NCBI tax ID(s): 1316931 (strain), 1492 (species)

SI-ID 92601

LMG 5588, ATCC 19398, CCUG 4217, CECT 361, DSM 552, IFO 13949, JCM 1391, LMG 1217, NCDO 1713, NCIB 7423, NCTC 7423, NCIMB 7423, CIP 103309, VKM B-1773, IAM 14194, KCTC 1786, KCTC 1871, ATCC 16398, LMD 89.156, CCRC 11665, HAMBI 482, NCFB 1713, VTT E-91426, NBRC 13949, NCCB 89156, BCRC 11665, NCAIM B.02000, VTT E-97426, VTT E-991415, CIP 109397, VTT E-911415, DSM 10702

Special Collections

Other strains from Clostridium butyricum

Section

When using BacDive for research please cite our paper

Clostridium butyricum Rowett is an anaerobe, mesophilic bacterium that was isolated from intestine of pig.

anaerobe
mesophilic
16S sequence
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	*Clostridiaceae*
	Genus	*Clostridium*
	Species	**Clostridium butyricum**
	Full Scientific Name (LPSN)	Clostridium butyricum Prazmowski 1880 (Approved Lists 1980)

Information on culture and growth conditions Culture and growth conditions

[Ref.: #4045]

Culture medium

RCM MEDIUM (DSMZ Medium 634)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

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Culture medium

CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #4045]

Culture medium composition

expand / minimize

[Ref.: #4045]

Culture medium

PY + X MEDIUM (DSMZ Medium 104b)

[Ref.: #4045]

Culture medium growth

[Ref.: #4045]

Culture medium link

Medium recipe at MediaDive

[Ref.: #4045]

Culture medium composition

expand / minimize

[Ref.: #33296]

Culture medium

MEDIUM 20 - for Anaerobic bacteria

[Ref.: #33296]

Culture medium growth

[Ref.: #33296]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #4045]	growth	37 °C
[Ref.: #33296]	growth	37 °C
[Ref.: #67770]	growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #4045]	Oxygen tolerance	anaerobe
[Ref.: #125439]	Oxygen tolerance	facultative anaerobe Confidence in %99.8

[Ref.: #125439]

Ability of spore formation

yes Confidence in %92.8

	Metabolite production	Metabolite	Production
[Ref.: #67770]		butyricin 7423	yes

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

[Ref.: #4045]	Sample type/isolated from	intestine of pig

[Ref.: #67770]	Sample type/isolated from	Intestine of swine
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Suidae (Pig,Swine)
#Host Body-Site	#Gastrointestinal tract	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB595129 (>99% sequence identity) for Clostridium butyricum subclade from Microbeatlas

Aquatic Samples	19472
Soil Samples	17569
Animal Samples	103476
Plant Samples	3000
Total Samples	143517

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

[Ref.: #4045]

Biosafety level

Risk group (German classification)
According to TRBA 466

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

16S Sequence information:

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

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #4045]	Clostridium butyricum partial 16S rRNA gene, strain VPI3266	AJ458420	1425	GenBank ENA	1492 tax ID
[Ref.: #20218]	Clostridium butyricum 16S ribosomal RNA	M59085	1516	GenBank ENA	1492 tax ID	*
[Ref.: #20218]	Clostridium butyricum DNA, 16s-23s intergenic spacer region, clone: A1	AB178153	383	GenBank ENA	1492 tax ID	*
[Ref.: #20218]	Clostridium butyricum DNA, 16s-23s intergenic spacer region, clone: A2	AB178154	470	GenBank ENA	1492 tax ID	*
[Ref.: #20218]	Clostridium butyricum DNA, 16s-23s intergenic spacer region, clone: A3	AB178155	496	GenBank ENA	1492 tax ID	*
[Ref.: #20218]	Clostridium butyricum gene for 16S rRNA, partial sequence, strain: ATCC 19398	AB075768	1451	GenBank ENA	1492 tax ID	*
[Ref.: #20218]	Clostridium butyricum strain ATCC19398 16S ribosomal RNA gene, partial sequence	AF396963	371	GenBank ENA	1492 tax ID	*
[Ref.: #20218]	Clostridium butyricum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1391	AB595129	1474	GenBank ENA	1492 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 butyricum DSM 10702	GCA_000409755	contig	GenBank ENA	1316931 tax ID
[Ref.: #66792]	Clostridium butyricum NBRC 13949	GCA_006742065	complete	GenBank ENA	1492 tax ID	*
[Ref.: #66792]	Clostridium butyricum NBRC 13949	GCA_007992895	contig	GenBank ENA	1492 tax ID	*
[Ref.: #66792]	Clostridium butyricum DSM 10702	1316931.3	wgs	PATRIC	1316931 tax ID	*
[Ref.: #66792]	Clostridium butyricum strain DSM 10702	1492.204	complete	PATRIC	1492 tax ID	*
[Ref.: #66792]	Clostridium butyricum strain NBRC 13949	1492.174	wgs	PATRIC	1492 tax ID	*

[Ref.: #4045]

GC-content

28 mol%

thermal denaturation, midpoint method (Tm)

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: Clostridium butyricum DSM 10702 NCBI: GCA_014131795.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	58.556	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	yes	86.883	yes
[Ref.: #125438]	aerobic	aerobicⓘ	no	95.591	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	yes	75.479	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	95.571	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	75.963	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Clostridium butyricum NBRC 13949 NCBI: GCA_006742065
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	92.8
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	88.6
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	86.6
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	facultative anaerobe	99.8

Availability in culture collections External links

[Ref.: #4045]

Culture collection no.

DSM 10702, ATCC 19398, IAM 14194, IFO 13949, JCM 1391, NBRC 13949, NCIMB 7423, NCTC 7423, VPI 3266, BCRC 11665, CCUG 4217, CECT 361, CIP 103309, CIP 109397, HAMBI 482, KCTC 1786, KCTC 1871, LMG 1217, NCFB 1713, VTT E-97426

[Ref.: #72096]

SI-ID 92601

Literature:

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

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Clostridium vitabionis sp. nov., isolated from the large intestine of a mini-pig.	Shin Y, Paek J, Kim H, Kook JK, Chang YH	Int J Syst Evol Microbiol	10.1099/ijsem.0.004694	2021	*
Pathogenicity	Effect of Probiotic Clostridium butyricum NCTC 7423 Supernatant on Biofilm Formation and Gene Expression of Bacteroides fragilis.	Shin DS, Rhee KJ, Eom YB	J Microbiol Biotechnol	10.4014/jmb.2001.01027	2020	*
Metabolism	Enhancement of fermentative hydrogen production from Spirogyra sp. by increased carbohydrate accumulation and selection of the biomass pretreatment under a biorefinery model.	Pinto T, Gouveia L, Ortigueira J, Saratale GD, Moura P	J Biosci Bioeng	10.1016/j.jbiosc.2018.02.017	2018	*
Phylogeny	Description of Absiella argi gen. nov., sp. nov., and transfer of Eubacterium dolichum and Eubacterium tortuosum to the genus Absiella as Absiella dolichum comb. nov. and Absiella tortuosum comb. nov.	Paek J, Shin Y, Kim JS, Kim H, Kook JK, Paek WK, Chang YH	Anaerobe	10.1016/j.anaerobe.2017.07.006	2017	*
Genetics	Genome Sequence of Clostridium butyricum Strain DSM 10702, a Promising Producer of Biofuels and Biochemicals.	Xin B, Tao F, Wang Y, Gao C, Ma C, Xu P	Genome Announc	10.1128/genomeA.00563-13	2013	*
Metabolism	Microbial conversion of glycerol to 1,3-propanediol: physiological comparison of a natural producer, Clostridium butyricum VPI 3266, and an engineered strain, Clostridium acetobutylicum DG1(pSPD5).	Gonzalez-Pajuelo M, Meynial-Salles I, Mendes F, Soucaille P, Vasconcelos I	Appl Environ Microbiol	10.1128/AEM.72.1.96-101.2006	2006	*
Metabolism	Hydrogen production from glucose by anaerobes.	Ogino H, Miura T, Ishimi K, Seki M, Yoshida H	Biotechnol Prog	10.1021/bp050224r	2005	*
Metabolism	Metabolic engineering of Clostridium acetobutylicum for the industrial production of 1,3-propanediol from glycerol.	Gonzalez-Pajuelo M, Meynial-Salles I, Mendes F, Andrade JC, Vasconcelos I, Soucaille P	Metab Eng	10.1016/j.ymben.2005.06.001	2005	*
Biotechnology	Production of 1,3-Propanediol by Clostridium butyricum VPI 3266 in continuous cultures with high yield and productivity.	Gonzalez-Pajuelo M, Andrade JC, Vasconcelos I	J Ind Microbiol Biotechnol	10.1007/s10295-005-0012-0	2005	*
Metabolism	Production of 1,3-propanediol by Clostridium butyricum VPI 3266 using a synthetic medium and raw glycerol.	Gonzalez-Pajuelo M, Andrade JC, Vasconcelos I	J Ind Microbiol Biotechnol	10.1007/s10295-004-0168-z	2004	*
Metabolism	Regulation of carbon and electron flow in Clostridium butyricum VPI 3266 grown on glucose-glycerol mixtures.	Saint-Amans S, Girbal L, Andrade J, Ahrens K, Soucaille P	J Bacteriol	10.1128/JB.183.5.1748-1754.2001	2001	*
Enzymology	Molecular analysis of the malR gene of Clostridium butyricum NCIMB 7423, a member of the LacI-GalR family of repressor proteins.	Goda SK, Eisa O, Akhter M, Minton NP	FEMS Microbiol Lett	10.1111/j.1574-6968.1998.tb13146.x	1998	*
Enzymology	Molecular analysis of a Clostridium butyricum NCIMB 7423 gene encoding 4-alpha-glucanotransferase and characterization of the recombinant enzyme produced in Escherichia coli.	Goda SK, Eissa O, Akhtar M, Minton NP	Microbiology (Reading)	10.1099/00221287-143-10-3287	1997	*
Metabolism	Phosphatidylserine decarboxylase from Clostridium butyricum.	Verma JN, Goldfine H	J Lipid Res	S0022-2275(20)34348-0	1985	*
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	*
	Reduced catabolic protein expression in Clostridium butyricum DSM 10702 correlate with reduced 1,3-propanediol synthesis at high glycerol loading.	Gungormusler-Yilmaz M, Shamshurin D, Grigoryan M, Taillefer M, Spicer V, Krokhin OV, Sparling R, Levin DB	AMB Express	10.1186/s13568-014-0063-6	2014	*

References

#4045

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 10702

#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 )

#33296 ; 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;

#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 .

#72096

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-ID92601.1 )

#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

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Clostridium butyricum DSM 10702

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