Strain identifier
BacDive ID: 2805
Type strain: 
Species: Clostridium saccharobutylicum
Strain Designation: BAS/B3/CSC
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)
version 8.1 (current version)
General
@ref: 5179
BacDive-ID: 2805
DSM-Number: 13864
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, motile, alcohol production
description: Clostridium saccharobutylicum BAS/B3/CSC is an anaerobe, spore-forming, mesophilic bacterium that produces alcohol and was isolated from soy beans.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1345695 | strain |
| 169679 | species |
strain history
- @ref: 5179
- 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}
doi: 10.13145/bacdive2805.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Clostridiaceae
- genus: Clostridium
- species: Clostridium saccharobutylicum
- full scientific name: Clostridium saccharobutylicum Keis et al. 2001
@ref: 5179
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium saccharobutylicum
full scientific name: Clostridium saccharobutylicum Keis et al. 2001
strain designation: BAS/B3/CSC
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 91.097 | |
| 69480 | 99.521 | positive |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 5179 | CLOSTRIDIUM ACETOBUTYLICUM MEDIUM (DSMZ Medium 411) | yes | https://mediadive.dsmz.de/medium/411 | Name: CLOSTRIDIUM ACETOBUTYLICUM MEDIUM (DSMZ Medium 411) Composition: Potato 200.0 g/l D-Glucose 6.0 g/l CaCO3 2.0 g/l L-Cysteine HCl x H2O 0.5 g/l Sodium resazurin 0.0005 g/l Distilled water |
| 5179 | PY + X MEDIUM (DSMZ Medium 104b) | yes | https://mediadive.dsmz.de/medium/104b | 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: 5179
- growth: positive
- type: growth
- temperature: 35
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 5179 | anaerobe | |
| 69480 | anaerobe | 100 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | yes | 100 |
compound production
| @ref | compound |
|---|---|
| 5179 | acetone |
| 5179 | n butanol |
| 5179 | ethanol |
Isolation, sampling and environmental information
isolation
- @ref: 5179
- sample type: soy beans
- geographic location: Indiana
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Fruit (Seed) |
Safety information
risk assessment
- @ref: 5179
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 5179
- description: Clostridium saccharobutylicum P262 16S ribosomal RNA (rrn) gene, partial sequence
- accession: U16147
- length: 1417
- database: ena
- NCBI tax ID: 169679
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Clostridium saccharobutylicum DSM 13864 | GCA_000473995 | complete | ncbi | 1345695 |
| 66792 | Clostridium saccharobutylicum DSM 13864 | GCA_001657435 | contig | ncbi | 1345695 |
| 66792 | Clostridium saccharobutylicum DSM 13864 | 1345695.10 | wgs | patric | 1345695 |
| 66792 | Clostridium saccharobutylicum DSM 13864 | 1345695.3 | complete | patric | 1345695 |
| 66792 | Clostridium saccharobutylicum DSM 13864 | 2916594526 | draft | img | 1345695 |
| 66792 | Clostridium saccharobutylicum NCP 262, DSM 13864 | 2534682367 | draft | img | 1345695 |
GC content
- @ref: 5179
- GC-content: 28.7
- method: sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | yes | 83.143 | no |
| flagellated | yes | 67.157 | no |
| gram-positive | yes | 68.004 | no |
| anaerobic | yes | 98.242 | no |
| aerobic | no | 98.317 | yes |
| halophile | no | 95.879 | no |
| spore-forming | yes | 94.454 | no |
| thermophile | no | 98.152 | yes |
| glucose-util | yes | 91.226 | no |
| glucose-ferment | yes | 75.236 | no |
External links
@ref: 5179
culture collection no.: DSM 13864, ATCC BAA 117, NCP 262
straininfo link
- @ref: 72331
- straininfo: 49532
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Enzymology | 11429467 | 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 | Blotting, Southern, *Chromosome Mapping, *Chromosomes, Bacterial, Clostridium/*genetics, Deoxyribonucleases, Type II Site-Specific/metabolism, Electrophoresis, Gel, Pulsed-Field, Genetic Markers, Physical Chromosome Mapping, Restriction Mapping | Metabolism |
| Metabolism | 11679336 | 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 | Amino Acid Sequence, *Bacterial Proteins, Base Sequence, Cellulase/genetics/metabolism, Cellulose/metabolism, Cloning, Molecular, Clostridium/*enzymology/genetics/growth & development, Genetic Vectors, Glucans/*metabolism, Glycoside Hydrolases/*genetics/*metabolism, Molecular Sequence Data, Neocallimastix/*enzymology/genetics, Phosphoenolpyruvate Sugar Phosphotransferase System/genetics/metabolism, Recombinant Proteins/metabolism, Solvents/*metabolism | Enzymology |
| Phylogeny | 11760952 | 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 | Acetone/*metabolism, Bacterial Typing Techniques, Butanols/*metabolism, Carbohydrate Metabolism, Clostridium/*classification/genetics/metabolism, DNA Fingerprinting/methods, DNA, Ribosomal/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, RNA, Ribosomal, 16S/*genetics, Sequence Analysis, DNA, Solvents/*metabolism | Metabolism |
| Enzymology | 14732492 | GltX from Clostridium saccharobutylicum NCP262: glutamate synthase or oxidoreductase? | Stutz HE, Reid SJ | Biochim Biophys Acta | 10.1016/j.bbaexp.2003.11.001 | 2004 | Amino Acid Sequence, Base Sequence, Blotting, Northern, Clostridium/*enzymology/*genetics, Evolution, Molecular, Gene Components, Glutamate Synthase/*genetics, Metronidazole/metabolism, Molecular Sequence Data, Oxidoreductases/*genetics, Phylogeny, Sequence Alignment, Sequence Analysis, DNA, Sequence Homology, Spectrophotometry | Genetics |
| Metabolism | 17768251 | 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 | Bacterial Proteins/chemistry/genetics/*metabolism, Base Sequence, Clostridium/enzymology/genetics/growth & development/*metabolism, *Gene Expression Regulation, Bacterial, Glutamate Synthase/chemistry/genetics/*metabolism, Glutamate-Ammonia Ligase/chemistry/genetics/*metabolism, Molecular Sequence Data, *Multigene Family, Nitrogen/*metabolism/pharmacology, RNA, Antisense/genetics/metabolism, RNA-Binding Proteins/chemistry/genetics/*metabolism | Genetics |
| Metabolism | 22362519 | 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 | Acetone/metabolism, Bioreactors/*microbiology, Butanols/*metabolism, Clostridium/*metabolism, Ethanol/metabolism, *Fermentation, *Molasses, Saccharum/*chemistry, Solvents/metabolism, Time Factors | Biotechnology |
| Phylogeny | 23298765 | 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 | Bioreactors/*microbiology, Butanols/isolation & purification/*metabolism, Clostridium/classification/*metabolism, Fermentation, Molasses/*microbiology, Species Specificity, Zea mays/*microbiology | Metabolism |
| Genetics | 24285650 | 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 | ||
| Metabolism | 25087740 | 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 | Clostridium/genetics/*metabolism, *DNA Methylation, DNA, Bacterial/metabolism, Endonucleases/*genetics, *Mutation | |
| Metabolism | 26318847 | 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 | *Biofuels, Biotechnology/*methods, Butanols/*metabolism, Cellulase/metabolism, Clostridium/drug effects/*metabolism, Fermentation/drug effects, Hydrolysis, Ionic Liquids/*pharmacology, *Recycling, Sodium Hydroxide/pharmacology, *Waste Products, Zea mays/*chemistry/drug effects | Pathogenicity |
| Metabolism | 26597485 | 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 | *Biofuels, Biomass, Butanols/chemistry/*metabolism, Cellulose/*chemistry/metabolism, Choline/chemistry, Clostridium/*metabolism, Conservation of Energy Resources/methods, Fermentation, Formates/chemistry, Glucose/chemistry/metabolism, Hydrolysis, Lignin/chemistry/metabolism, Polysaccharides/chemistry, Solvents/chemistry, Zea mays/*chemistry/metabolism | |
| Metabolism | 26764423 | 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 | Alkalies, Biomass, *Bioreactors, Biotechnology/economics/methods, Butanols/analysis/economics/*metabolism, Clostridium/*metabolism, *Fermentation, Hydrolysis, Zea mays/*metabolism | Biotechnology |
| Metabolism | 26915224 | [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 | 1-Butanol/*metabolism, Bacterial Proteins/*genetics/metabolism, Biosynthetic Pathways, Clostridium/*enzymology/genetics, Escherichia coli/*genetics/*metabolism, Fermentation, Metabolic Engineering | Enzymology | |
| Metabolism | 28365341 | 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 | Butanols/metabolism, Clostridium/metabolism, Coenzyme A/*metabolism, Escherichia coli/*metabolism | Biotechnology |
| 29536872 | 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 | 1-Butanol, *Butanols, Clostridium, *Fermentation, *Furaldehyde, Hydrolysis | ||
| Biotechnology | 30275904 | 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 | 31950445 | 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 | Arginine/metabolism, Bioreactors, *CRISPR-Cas Systems, Citrulline/metabolism, Corynebacterium glutamicum/enzymology/*genetics, Escherichia coli/genetics/metabolism, Fermentation, Genome, Bacterial, Glucose/metabolism, Glutamate Synthase (NADH)/*metabolism, Glyceraldehyde-3-Phosphate Dehydrogenases/*metabolism, Glycolysis, Industrial Microbiology, Metabolic Engineering, NADP/metabolism, Ornithine/*biosynthesis, Plasmids/genetics, Recombinant Proteins/metabolism, Transcription, Genetic | Enzymology |
| 33062052 | 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 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 5179 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13864) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-13864 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | 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 | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | 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 | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 72331 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49532.1 | StrainInfo: A central database for resolving microbial strain identifiers |