Clostridium saccharoperbutylacetonicum (DSM 14923, ATCC 27021, NCIMB 12606)

Name: Clostridium saccharoperbutylacetonicum (DSM 14923, ATCC 27021, NCIMB 12606)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2659

Type strain

Strain Designation N1-4(HMT)

Culture col. no. DSM 14923 ATCC 27021 NCIMB 12606 N1-4(HMT)

NCBI tax ID(s) 36745

Special Collections DSMZ

History <- ATCC <- S. Ogata; N1-4(HMT) <- M. Hongo and K. Nagata, Kyushu University, Fukuoka, Japan {1959}

Links

Clostridium saccharoperbutylacetonicum N1-4 is an anaerobe, mesophilic prokaryote that was isolated from soil.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 44738

ATCC 27021,NCIB 12606,NCIMB 12606,CECT 4187,DSM 14923

@ref 20215

Last LPSN update 2025-12-16 09:47:21

Domain Bacillati

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Clostridiaceae

Genus Clostridium

Species Clostridium saccharoperbutylacetonicum

Full scientific name Clostridium saccharoperbutylacetonicum Keis et al. 2001

BacDive ID	Other strains from **Clostridium saccharoperbutylacetonicum** (1)	Type strain
2658	C. saccharoperbutylacetonicum N1-504, DSM 2152, ATCC 27022

Morphology

Cell morphology

@ref	Motility	Confidence
125439		91.6

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
5607	CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)		Medium recipe at MediaDive	Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water
5607	PY + X MEDIUM (DSMZ Medium 104b)		Medium recipe at MediaDive	Name: PY + X MEDIUM (DSMZ Medium 104b) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
5607	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
5607	anaerobe
125439	facultative anaerobe	99.8

Spore formation

@ref	Spore formation	Confidence
125439		95.7

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
5607	soil	Fukuoka	Japan	JPN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5607	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Clostridium saccharoperbutylacetonicum N1-4(HMT)	complete			2608642274	931276	98.75
66792	ASM34088v1 assembly for Clostridium saccharoperbutylacetonicum N1-4(HMT)	complete	GCA_000340885	931276.5		931276	97.34
66792	CloSac1.0 assembly for Clostridium saccharoperbutylacetonicum N1-4(HMT) ATCC 27021	contig	GCA_000334435	931276.4	2551306649	931276	35.6

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5607	Clostridium saccharoperbutylacetonicum N1-4 16S ribosomal RNA (rrn) gene, partial sequence	U16122	1417		931276

GC content

@ref	GC-content (mol%)	Method
5607	31	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Clostridium saccharoperbutylacetonicum N1-4(HMT) strain N1-4(HMT)
PATRIC: 931276.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	95.70	no
125439	motility	BacteriaNetⓘ	yes	91.60	no
125439	gram_stain	BacteriaNetⓘ	positive	81.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	99.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Clostridium saccharoperbutylacetonicum N1-4(HMT) N1-4(HMT)
NCBI: GCA_000340885.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	56.02	no
125438	anaerobic	anaerobicⓘ	yes	83.72	no
125438	aerobic	aerobicⓘ	no	94.34	no
125438	spore-forming	spore-formingⓘ	yes	76.87	no
125438	thermophilic	thermophileⓘ	no	95.70	yes
125438	flagellated	motile2+ⓘ	yes	75.44	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Co-fermentation of sugarcane bagasse hydrolysate and molasses by Clostridium saccharoperbutylacetonicum: Effect on sugar consumption and butanol production	Zetty-Arenas AM, Tovar LP, Alves RF, Mariano AP, van Gulik W, Maciel Filho R, Freitas S.	Industrial crops and products.	10.1016/j.indcrop.2021.113512	2021
	Enabling butanol production from crude sugarcane bagasse hemicellulose hydrolysate by batch-feeding it into molasses fermentation	Chacon SJ, Matias G, Vieira CFdS, Ezeji TC, Maciel Filho R, Mariano AP.	Industrial crops and products.		2021
Pathogenicity	Production of propionate using metabolically engineered strains of Clostridium saccharoperbutylacetonicum.	Baur T, Wentzel A, Durre P.	Appl Microbiol Biotechnol	10.1007/s00253-022-12210-8	2022
	Investigating the Processing Potential of Ethiopian Agricultural Residue Enset/Ensete ventricosum for Biobutanol Production.	Seid N, Griesheimer P, Neumann A.	Bioengineering (Basel)	10.3390/bioengineering9040133	2022
Metabolism	Identification and Investigation of Autolysin Genes in Clostridium saccharoperbutylacetonicum Strain N1-4 for Enhanced Biobutanol Production.	Jimenez-Bonilla P, Feng J, Wang S, Zhang J, Wang Y, Blersch D, de-Bashan LE, Gaillard P, Guo L, Wang Y.	Appl Environ Microbiol	10.1128/aem.02442-20	2021
	RRNPP-type quorum-sensing systems regulate solvent formation, sporulation and cell motility in Clostridium saccharoperbutylacetonicum.	Feng J, Zong W, Wang P, Zhang ZT, Gu Y, Dougherty M, Borovok I, Wang Y.	Biotechnol Biofuels	10.1186/s13068-020-01723-x	2020
Transcriptome	Increased Butyrate Production in Clostridium saccharoperbutylacetonicum from Lignocellulose-Derived Sugars.	Baur ST, Markussen S, Di Bartolomeo F, Poehlein A, Baker A, Jenkinson ER, Daniel R, Wentzel A, Durre P.	Appl Environ Microbiol	10.1128/aem.02419-21	2022
Biotechnology	Development of Clostridium saccharoperbutylacetonicum as a Whole Cell Biocatalyst for Production of Chirally Pure (R)-1,3-Butanediol.	Grosse-Honebrink A, Little GT, Bean Z, Heldt D, Cornock RHM, Winzer K, Minton NP, Green E, Zhang Y.	Front Bioeng Biotechnol	10.3389/fbioe.2021.659895	2021
	Stirring the hydrogen and butanol production from Enset fiber via simultaneous saccharification and fermentation (SSF) process.	Seid N, Wiessner L, Aliyu H, Neumann A.	Bioresour Bioprocess	10.1186/s40643-024-00809-w	2024
	Parallel bioreactor system for accessible and reproducible anaerobic culture.	Monaghan TI, Baker JA, Robinson GK, Shepherd M.	Access Microbiol	10.1099/acmi.0.000225	2021
Metabolism	Minimalistic Cellulosome of the Butanologenic Bacterium Clostridium saccharoperbutylacetonicum.	Levi Hevroni B, Morais S, Ben-David Y, Morag E, Bayer EA.	mBio	10.1128/mbio.00443-20	2020
	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
	Milling byproducts are an economically viable substrate for butanol production using clostridial ABE fermentation.	Thieme N, Panitz JC, Held C, Lewandowski B, Schwarz WH, Liebl W, Zverlov V.	Appl Microbiol Biotechnol	10.1007/s00253-020-10882-8	2020
Metabolism	Sugar uptake by the solventogenic clostridia.	Mitchell WJ.	World J Microbiol Biotechnol	10.1007/s11274-015-1981-4	2016
Metabolism	Renewable fatty acid ester production in Clostridium.	Feng J, Zhang J, Ma Y, Feng Y, Wang S, Guo N, Wang H, Wang P, Jimenez-Bonilla P, Gu Y, Zhou J, Zhang ZT, Cao M, Jiang D, Wang S, Liu XW, Shao Z, Borovok I, Huang H, Wang Y.	Nat Commun	10.1038/s41467-021-24038-3	2021
	Genome Sequence of the Butanol Hyperproducer Clostridium saccharoperbutylacetonicum N1-4.	Del Cerro C, Felpeto-Santero C, Rojas A, Tortajada M, Ramon D, Garcia JL.	Genome Announc	10.1128/genomea.00070-13	2013
Genetics	Genome Editing in Clostridium saccharoperbutylacetonicum N1-4 with the CRISPR-Cas9 System.	Wang S, Dong S, Wang P, Tao Y, Wang Y.	Appl Environ Microbiol	10.1128/aem.00233-17	2017
Genetics	Combining multiple functional annotation tools increases coverage of metabolic annotation.	Griesemer M, Kimbrel JA, Zhou CE, Navid A, D'haeseleer P.	BMC Genomics	10.1186/s12864-018-5221-9	2018
	Integrated systems for biopolymers and bioenergy production from organic waste and by-products: a review of microbial processes.	Pagliano G, Ventorino V, Panico A, Pepe O.	Biotechnol Biofuels	10.1186/s13068-017-0802-4	2017
	Characterization, Biosynthesis, and Regulation of Granulose in Clostridium acetobutylicum.	Reysenbach AL, Ravenscroft N, Long S, Jones DT, Woods DR.	Appl Environ Microbiol	10.1128/aem.52.1.185-190.1986	1986
	Three-stage repeated-batch immobilized cell fermentation to produce butanol from non-detoxified sugarcane bagasse hemicellulose hydrolysates.	Chacon SJ, Matias G, Ezeji TC, Maciel Filho R, Mariano AP	Bioresour Technol	10.1016/j.biortech.2020.124504	2020
Metabolism	Genome sequence analysis of the temperate bacteriophage TBP2 of the solvent producer Clostridium saccharoperbutylacetonicum N1-4 (HMT, ATCC 27021).	Schuler MA, Stegmann BA, Poehlein A, Daniel R, Durre P	FEMS Microbiol Lett	10.1093/femsle/fnaa103	2020
Metabolism	Development of a High-Efficiency Transformation Method and Implementation of Rational Metabolic Engineering for the Industrial Butanol Hyperproducer Clostridium saccharoperbutylacetonicum Strain N1-4.	Herman NA, Li J, Bedi R, Turchi B, Liu X, Miller MJ, Zhang W	Appl Environ Microbiol	10.1128/AEM.02942-16	2016
Genetics	Complete Genome Sequence of the Solvent Producer Clostridium saccharoperbutylacetonicum Strain DSM 14923.	Poehlein A, Krabben P, Durre P, Daniel R	Genome Announc	10.1128/genomeA.01056-14	2014
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

References

#5607	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 14923
#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) .
#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 .
#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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Clostridium saccharoperbutylacetonicum (DSM 14923, ATCC 27021, NCIMB 12606)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000340885

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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