Name: Clostridium saccharobutylicum BAS/B3/CSC
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2805

Type strain:

Species: Clostridium saccharobutylicum

Strain Designation: BAS/B3/CSC

Culture col. no.: DSM 13864, ATCC BAA-117, NCP 262

Strain history: <- D. T. Jones, New Zealand <- D. T. Jones and D. R. Woods, South Africa <- Natl. Chem. Products Ltd., South Africa; NCP 262 (Clostridium acetobutylicum) <- Commercial Solvent Corp., USA; BAS/B3/CSC <- Commercial Solvent Corp., USA (Clostridium saccharo-butyl-acetonicum-liquefaciens) <- C. T. Arzberger, E. H. Carnarius and W. N. McCutchan {1936}

NCBI tax ID(s): 1345695 (strain), 169679 (species)

SI-ID 49532

DSM 13864, ATCC BAA-117, NCIMB 13764

Section

Clostridium saccharobutylicum BAS/B3/CSC is an anaerobe, spore-forming, mesophilic bacterium that produces alcohol and was isolated from soy beans.

alcohol production
motile
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 saccharobutylicum**
	Full Scientific Name (LPSN)	Clostridium saccharobutylicum Keis et al. 2001

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %99.521

[Ref.: #69480]	Motility	yes Confidence in %91.097

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5179]

Culture medium

CLOSTRIDIUM ACETOBUTYLICUM MEDIUM (DSMZ Medium 411)

[Ref.: #5179]

Culture medium growth

[Ref.: #5179]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5179]

Culture medium composition

expand / minimize

[Ref.: #5179]

Culture medium

PY + X MEDIUM (DSMZ Medium 104b)

[Ref.: #5179]

Culture medium growth

[Ref.: #5179]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5179]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #5179]			growth	35 °C

[Ref.: #5179]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #5179]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %100

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

[Ref.: #5179]	Name of produced compound	acetone
[Ref.: #5179]	Name of produced compound	n butanol
[Ref.: #5179]	Name of produced compound	ethanol

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	butanoate fermentation	100	4 of 4
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	cardiolipin biosynthesis	100	7 of 7
[Ref.: #66794]	CMP-KDO biosynthesis	100	4 of 4
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	enterobactin biosynthesis	100	3 of 3
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	hydrogen production	100	5 of 5
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	vitamin B1 metabolism	92.31	12 of 13
[Ref.: #66794]	myo-inositol biosynthesis	90	9 of 10
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	alanine metabolism	86.21	25 of 29
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	glutamate and glutamine metabolism	85.71	24 of 28
[Ref.: #66794]	phenylalanine metabolism	84.62	11 of 13
[Ref.: #66794]	NAD metabolism	83.33	15 of 18
[Ref.: #66794]	glycolysis	82.35	14 of 17
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	starch degradation	80	8 of 10
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	Entner Doudoroff pathway	80	8 of 10
[Ref.: #66794]	pyrimidine metabolism	80	36 of 45
[Ref.: #66794]	vitamin B12 metabolism	79.41	27 of 34
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	citric acid cycle	78.57	11 of 14
[Ref.: #66794]	nitrate assimilation	77.78	7 of 9
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	purine metabolism	75.53	71 of 94
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	biotin biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	propionate fermentation	70	7 of 10
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	lysine metabolism	64.29	27 of 42
[Ref.: #66794]	heme metabolism	64.29	9 of 14
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	oxidative phosphorylation	62.64	57 of 91
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	histidine metabolism	62.07	18 of 29
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	sulfate reduction	61.54	8 of 13
[Ref.: #66794]	lipid metabolism	61.29	19 of 31
[Ref.: #66794]	polyamine pathway	60.87	14 of 23
[Ref.: #66794]	degradation of pentoses	60.71	17 of 28
[Ref.: #66794]	factor 420 biosynthesis	60	3 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	tryptophan metabolism	57.89	22 of 38
[Ref.: #66794]	methionine metabolism	57.69	15 of 26
[Ref.: #66794]	degradation of hexoses	55.56	10 of 18
[Ref.: #66794]	pentose phosphate pathway	54.55	6 of 11
[Ref.: #66794]	metabolism of disaccharids	54.55	6 of 11
[Ref.: #66794]	arginine metabolism	54.17	13 of 24
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	non-pathway related	52.63	20 of 38
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	glutathione metabolism	50	7 of 14
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	isoprenoid biosynthesis	50	13 of 26
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	lipid A biosynthesis	44.44	4 of 9
[Ref.: #66794]	arachidonic acid metabolism	44.44	8 of 18
[Ref.: #66794]	degradation of sugar acids	44	11 of 25
[Ref.: #66794]	benzoyl-CoA degradation	42.86	3 of 7
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	38.46	5 of 13
[Ref.: #66794]	tyrosine metabolism	35.71	5 of 14
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	androgen and estrogen metabolism	31.25	5 of 16
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	ascorbate metabolism	27.27	6 of 22
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	phenylpropanoid biosynthesis	23.08	3 of 13
[Ref.: #66794]	4-hydroxymandelate degradation	22.22	2 of 9
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #5179]	Sample type/isolated from	soy beans
[Ref.: #5179]	Geographic location (country and/or sea, region)	Indiana
[Ref.: #5179]	Country	USA
[Ref.: #5179]	Country ISO 3 Code	USA
[Ref.: #5179]	Continent	North America
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Fruit (Seed)

What are isolation sources categories?

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

[Ref.: #5179]

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:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #5179]	Clostridium saccharobutylicum P262 16S ribosomal RNA (rrn) gene, partial sequence	U16147	1417	ENA	169679 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.: #66792]	Clostridium saccharobutylicum DSM 13864	GCA_000473995	complete	GenBank	1345695 tax ID	*
[Ref.: #66792]	Clostridium saccharobutylicum DSM 13864	GCA_001657435	contig	GenBank	1345695 tax ID	*
[Ref.: #66792]	Clostridium saccharobutylicum DSM 13864	1345695.10	wgs	PATRIC	1345695 tax ID	*
[Ref.: #66792]	Clostridium saccharobutylicum DSM 13864	1345695.3	complete	PATRIC	1345695 tax ID	*
[Ref.: #66792]	Clostridium saccharobutylicum DSM 13864	2916594526	draft	JGI IMG/M	1345695 tax ID	*
[Ref.: #66792]	Clostridium saccharobutylicum NCP 262, DSM 13864	2534682367	draft	JGI IMG/M	1345695 tax ID	*

[Ref.: #5179]

GC-content

28.7 mol%

sequence analysis

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 saccharobutylicum DSM 13864 DSM 13864 NCBI: GCA_000473995.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Clostridium saccharobutylicum DSM 13864 DSM 13864 NCBI: GCA_000473995.1
[Ref.: #69480]	motile	yes	83.143	no
[Ref.: #69480]	flagellated	yes	67.157	no
[Ref.: #69480]	gram-positive	yes	68.004	no
[Ref.: #69480]	anaerobic	yes	98.242	no
[Ref.: #69480]	aerobic	no	98.317	yes
[Ref.: #69480]	halophile	no	95.879	no
[Ref.: #69480]	spore-forming	yes	94.454	no
[Ref.: #69480]	thermophile	no	98.152	yes
[Ref.: #69480]	glucose-util	yes	91.226	no
[Ref.: #69480]	glucose-ferment	yes	75.236	no

Availability in culture collections External links

[Ref.: #5179]

Culture collection no.

DSM 13864, ATCC BAA-117, NCP 262

[Ref.: #72331]

SI-ID 49532

Literature:

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

	Title	Authors	Journal	DOI	Year
Metabolism	CRISPR-Cpf1-Assisted Engineering of Corynebacterium glutamicum SNK118 for Enhanced L-Ornithine Production by NADP-Dependent Glyceraldehyde-3-Phosphate Dehydrogenase and NADH-Dependent Glutamate Dehydrogenase.	Dong J, Kan B, Liu H, Zhan M, Wang S, Xu G, Han R, Ni Y	Appl Biochem Biotechnol	10.1007/s12010-020-03231-y	2020	*
Biotechnology	Restriction-deficient mutants and marker-less genomic modification for metabolic engineering of the solvent producer Clostridium saccharobutylicum.	Huang CN, Liebl W, Ehrenreich A	Biotechnol Biofuels	10.1186/s13068-018-1260-3	2018	*
Metabolism	Engineering coenzyme A-dependent pathway from Clostridium saccharobutylicum in Escherichia coli for butanol production.	Ye W, Li J, Han R, Xu G, Dong J, Ni Y	Bioresour Technol	10.1016/j.biortech.2017.03.085	2017	*
Metabolism	[Construction of butanol-producing pathway from Clostridium saccharobutylicum in Escherichia coli JM109 (DE3) and its fermentation].	Li J, Han R, Xu G, Dong J, Ni Y	Wei Sheng Wu Xue Bao		2015	*
Metabolism	Simultaneous saccharification and fermentation of dilute alkaline-pretreated corn stover for enhanced butanol production by Clostridium saccharobutylicum DSM 13864.	Dong JJ, Ding JC, Zhang Y, Ma L, Xu GC, Han RZ, Ni Y	FEMS Microbiol Lett	10.1093/femsle/fnw003	2016	*
Metabolism	Enhancing cellulose accessibility of corn stover by deep eutectic solvent pretreatment for butanol fermentation.	Xu GC, Ding JC, Han RZ, Dong JJ, Ni Y	Bioresour Technol	10.1016/j.biortech.2015.11.002	2015	*
Metabolism	Biobutanol production from corn stover hydrolysate pretreated with recycled ionic liquid by Clostridium saccharobutylicum DSM 13864.	Ding JC, Xu GC, Han RZ, Ni Y	Bioresour Technol	10.1016/j.biortech.2015.07.119	2015	*
Metabolism	Development of an in vivo methylation system for the solventogen Clostridium saccharobutylicum NCP 262 and analysis of two endonuclease mutants.	Lesiak JM, Liebl W, Ehrenreich A	J Biotechnol	10.1016/j.jbiotec.2014.07.005	2014	*
Genetics	Complete Genome Sequence of the Solvent Producer Clostridium saccharobutylicum NCP262 (DSM 13864).	Poehlein A, Hartwich K, Krabben P, Ehrenreich A, Liebl W, Durre P, Gottschalk G, Daniel R	Genome Announc	10.1128/genomeA.00997-13	2013	*
Phylogeny	Continuous butanol fermentation from inexpensive sugar-based feedstocks by Clostridium saccharobutylicum DSM 13864.	Ni Y, Xia Z, Wang Y, Sun Z	Bioresour Technol	10.1016/j.biortech.2012.11.142	2012	*
Metabolism	Butanol production from cane molasses by Clostridium saccharobutylicum DSM 13864: batch and semicontinuous fermentation.	Ni Y, Wang Y, Sun Z	Appl Biochem Biotechnol	10.1007/s12010-012-9614-y	2012	*
Metabolism	Co-regulation of the nitrogen-assimilatory gene cluster in Clostridium saccharobutylicum.	Stutz HE, Quixley KWM, McMaster LD, Reid SJ	Microbiology (Reading)	10.1099/mic.0.2007/005371-0	2007	*
Enzymology	GltX from Clostridium saccharobutylicum NCP262: glutamate synthase or oxidoreductase?	Stutz HE, Reid SJ	Biochim Biophys Acta	10.1016/j.bbaexp.2003.11.001	2004	*
Phylogeny	Emended descriptions of Clostridium acetobutylicum and Clostridium beijerinckii, and descriptions of Clostridium saccharoperbutylacetonicum sp. nov. and Clostridium saccharobutylicum sp. nov.	Keis S, Shaheen R, Jones DT	Int J Syst Evol Microbiol	10.1099/00207713-51-6-2095	2001	*
Metabolism	Clostridium beijerinckii cells expressing Neocallimastix patriciarum glycoside hydrolases show enhanced lichenan utilization and solvent production.	Lopez-Contreras AM, Smidt H, van der Oost J, Claassen PA, Mooibroek H, de Vos WM	Appl Environ Microbiol	10.1128/AEM.67.11.5127-5133.2001	2001	*
Enzymology	Physical and genetic map of the Clostridium saccharobutylicum (formerly Clostridium acetobutylicum) NCP 262 chromosome.	Keis S, Sullivan JT, Jones DT	Microbiology (Reading)	10.1099/00221287-147-7-1909	2001	*
	Facilely reducing recalcitrance of lignocellulosic biomass by a newly developed ethylamine-based deep eutectic solvent for biobutanol fermentation.	Xu G, Li H, Xing W, Gong L, Dong J, Ni Y	Biotechnol Biofuels	10.1186/s13068-020-01806-9	2020	*
	Detoxification of furfural residues hydrolysate for butanol fermentation by Clostridium saccharobutylicum DSM 13864.	Dong JJ, Han RZ, Xu GC, Gong L, Xing WR, Ni Y	Bioresour Technol	10.1016/j.biortech.2018.02.098	2018	*

References

#5179

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 13864

#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 )

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#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 )

#72331

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-ID49532.1 )

* These data were automatically processed and therefore are not curated

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Clostridium saccharobutylicum DSM 13864 DSM 13864

Clostridium saccharobutylicum DSM 13864 DSM 13864

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