Strain identifier
BacDive ID: 2626
Type strain:
Species: Clostridium pasteurianum
Strain Designation: McClung 2300, 5
Strain history: ATCC 6013 <-- E. McCoy 5 <-- S. Winogradsky (L. S. McClung 2300).
NCBI tax ID(s): 1262449 (strain), 1501 (species)
General
@ref: 123
BacDive-ID: 2626
DSM-Number: 525
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, motile, polysaccharide production
description: Clostridium pasteurianum McClung 2300 is an anaerobe, spore-forming, thermophilic bacterium that produces polysaccharides.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1262449 | strain |
1501 | species |
strain history
@ref | history |
---|---|
123 | <- Institut für Mikrobiologie, Universität Göttingen (IMG), Germany; IMG 1584b <- ATCC <- E. McCoy, Universityof Wisconsin, Departments of Biochemistry and Agricultural Bacteriology, Madison, USA; 5 <- S. Winogradsky, University of Saint Petersburg, Russia |
67770 | ATCC 6013 <-- E. McCoy 5 <-- S. Winogradsky (L. S. McClung 2300). |
doi: 10.13145/bacdive2626.20230509.8.1
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 pasteurianum
- full scientific name: Clostridium pasteurianum Winogradsky 1895 (Approved Lists 1980)
@ref: 123
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium pasteurianum
full scientific name: Clostridium pasteurianum Winogradsky 1895
strain designation: McClung 2300, 5
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 94.639 | |
69480 | 100 | positive |
colony morphology
- @ref: 50524
- incubation period: 1 day
Culture and growth conditions
culture medium
- @ref: 123
- name: CLOSTRIDIUM SP. MEDIUM (DSMZ Medium 54b)
- growth: yes
- link: https://mediadive.dsmz.de/medium/54b
- composition: Name: CLOSTRIDIUM SP. MEDIUM (DSMZ Medium 54b) Composition: CaCO3 20.0 g/l Glucose 20.0 g/l Agar 17.0 g/l (optional) Yeast extract 10.0 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
22908 | positive | maximum | 45 | thermophilic |
22908 | positive | minimum | 25 | mesophilic |
22908 | positive | growth | 32 | mesophilic |
123 | positive | growth | 37 | mesophilic |
50524 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
22908 | positive | maximum | 7.8 |
22908 | positive | minimum | 4.7 |
22908 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
123 | anaerobe | |
50524 | anaerobe | |
69480 | anaerobe | 99.695 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 100 |
69480 | yes | 100 |
compound production
@ref | compound |
---|---|
123 | D gluconate dehydratase |
123 | granulose phosphorylase |
123 | hydrogenase |
123 | invertase |
123 | ß ketothiolase |
123 | 1 phosphofructokinase |
123 | sorbitol-6-phosphate dehydrogenase |
123 | ferredoxin |
123 | flavodoxin |
123 | 2-keto-3-D gluconate |
123 | polysaccharides |
123 | rubredoxin |
123 | squalene |
123 | restriction endonuclease ThaI |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
22908 | 17057 | cellobiose | + | growth |
22908 | 16899 | D-mannitol | + | growth |
22908 | 6731 | melezitose | + | growth |
22908 | 63150 | D-rhamnose | + | growth |
22908 | 17924 | D-sorbitol | + | growth |
22908 | 65327 | D-xylose | + | growth |
22908 | 17754 | glycerol | + | growth |
22908 | 30849 | L-arabinose | + | growth |
22908 | 17716 | lactose | + | growth |
22908 | 17814 | salicin | + | growth |
22908 | 27082 | trehalose | + | growth |
enzymes
@ref | value | activity | ec |
---|---|---|---|
22908 | acid phosphatase | - | 3.1.3.2 |
22908 | alkaline phosphatase | - | 3.1.3.1 |
22908 | alpha-galactosidase | - | 3.2.1.22 |
22908 | beta-galactosidase | - | 3.2.1.23 |
22908 | beta-glucosidase | - | 3.2.1.21 |
22908 | glutamate decarboxylase | - | 4.1.1.15 |
Isolation, sampling and environmental information
taxonmaps
- @ref: 69479
- File name: preview.99_1866.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_699;97_816;98_947;99_1866&stattab=map
- Last taxonomy: Clostridium pasteurianum
- 16S sequence: FR870440
- Sequence Identity:
- Total samples: 10916
- soil counts: 4701
- aquatic counts: 2719
- animal counts: 2637
- plant counts: 859
Safety information
risk assessment
- @ref: 123
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | {16S/23S ribosomal DNA spacer region} [Clostridium pasteurianum, DSM 525, Genomic, 275 nt] | S51966 | 275 | ena | 1501 |
123 | Clostridium pasteurianum strain DSM 525 16S ribosomal RNA gene, partial sequence | DQ911268 | 320 | ena | 1262449 |
67770 | Clostridium pasteurianum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1408 | AB536773 | 1468 | ena | 1262449 |
67770 | Clostridium pasteurianum partial 16S rRNA gene, type strain CECT 377T | FR870440 | 1491 | ena | 1262449 |
67770 | C.pasteurianum small subunit ribosomal RNA | M23930 | 1511 | ena | 1501 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Clostridium pasteurianum DSM 525 = ATCC 6013 | GCA_001856645 | complete | ncbi | 1262449 |
66792 | Clostridium pasteurianum DSM 525 = ATCC 6013 | GCA_000807255 | complete | ncbi | 1262449 |
66792 | Clostridium pasteurianum DSM 525 = ATCC 6013 | GCA_000807175 | complete | ncbi | 1262449 |
66792 | Clostridium pasteurianum DSM 525 | 1262449.3 | wgs | patric | 1262449 |
66792 | Clostridium pasteurianum DSM 525 = ATCC 6013 | 1262449.7 | complete | patric | 1262449 |
66792 | Clostridium pasteurianum DSM 525 = ATCC 6013 | 1262449.5 | wgs | patric | 1262449 |
66792 | Clostridium pasteurianum DSM 525 = ATCC 6013 | 1262449.10 | complete | patric | 1262449 |
66792 | Clostridium pasteurianum DSM 525 = ATCC 6013 | 1262449.8 | complete | patric | 1262449 |
66792 | Clostridium pasteurianum strain M150B | 1501.9 | complete | patric | 1501 |
66792 | Clostridium pasteurianum DSM 525, ATCC 6013 | 2531839097 | draft | img | 1262449 |
66792 | Clostridium pasteurianum DSM 525, ATCC 6013 | 2627854235 | complete | img | 1262449 |
66792 | Clostridium pasteurianum ATCC6013 | 2600254951 | draft | img | 1262449 |
66792 | Clostridium pasteurianum DSM 525 = ATCC 6013 | 2627853721 | complete | img | 1262449 |
67770 | Clostridium pasteurianum DSM 525 = ATCC 6013 | GCA_000330945 | contig | ncbi | 1262449 |
67770 | Clostridium pasteurianum DSM 525 = ATCC 6013 | GCA_000724205 | contig | ncbi | 1262449 |
GC content
@ref | GC-content | method |
---|---|---|
22908 | 26-28 | high performance liquid chromatography (HPLC) |
123 | 29.8 | sequence analysis |
67770 | 26 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
flagellated | yes | 58.885 | no |
gram-positive | yes | 85.703 | no |
anaerobic | yes | 95.932 | yes |
aerobic | no | 93.948 | no |
halophile | no | 96.016 | no |
spore-forming | yes | 94.913 | no |
thermophile | no | 92.916 | no |
glucose-util | yes | 89.114 | no |
motile | yes | 80.891 | no |
glucose-ferment | yes | 59.084 | no |
External links
@ref: 123
culture collection no.: DSM 525, ATCC 6013, IMG 1584b, NCIMB 9486, VKM B-1774, CCUG 31328, JCM 1408, BCRC 10942, CECT 377, KCTC 1674, LMG 3285, LMG 5709, NCFB 1845
straininfo link
- @ref: 72157
- straininfo: 44729
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Enzymology | 3269388 | Restriction endonucleases in Clostridium pasteurianum ATCC 6013 and C. thermohydrosulfuricum DSM 568. | Richards DF, Linnett PE, Oultram JD, Young M | J Gen Microbiol | 10.1099/00221287-134-12-3151 | 1988 | Clostridium/*enzymology/genetics, Deoxyribonucleases, Type II Site-Specific/*analysis, Electrophoresis, Agar Gel | |
Enzymology | 4157120 | Mobilization of granulose in Clostridium pasteurianum. Purification and properties of granulose phosphorylase. | Robson RL, Morris JG | Biochem J | 10.1042/bj1440513 | 1974 | Adenosine Diphosphate Glucose, Adenosine Monophosphate, Adenosine Triphosphate, Binding, Competitive, Clostridium/*metabolism, Glucose, Glycogen/*analogs & derivatives/metabolism, Guanosine Diphosphate Sugars, Hydrogen-Ion Concentration, Kinetics, NADP, Phosphorylases/*isolation & purification, Uridine Diphosphate Glucose | Metabolism |
Phylogeny | 6863221 | Regeneration of protoplasts of Clostridium pasteurianum ATCC 6013. | Minton NP, Morris JG | J Bacteriol | 10.1128/jb.155.1.432-434.1983 | 1983 | Clostridium/*physiology, Muramidase/metabolism, Mutation, Protoplasts/*physiology, Species Specificity | Metabolism |
Genetics | 8334167 | Organization of potential alternative nitrogenase genes from Clostridium pasteurianum. | Zinoni F, Robson RM, Robson RL | Biochim Biophys Acta | 10.1016/0167-4781(93)90096-v | 1993 | Amino Acid Sequence, Base Sequence, Clostridium/*genetics, Molecular Sequence Data, Nitrogenase/chemistry/*genetics, Open Reading Frames | |
Metabolism | 16028199 | Arylsulfonates as sole source of sulfur for Clostridium pasteurianum DSM 12136. | Chien CC | J Basic Microbiol | 10.1002/jobm.200410490 | 2005 | Arylsulfonates/*metabolism, Clostridium/*metabolism, Sulfur/*metabolism | |
Biotechnology | 21316947 | Butanol production from thin stillage using Clostridium pasteurianum. | Ahn JH, Sang BI, Um Y | Bioresour Technol | 10.1016/j.biortech.2011.01.046 | 2011 | Biotechnology/*methods, Butanols/*metabolism, Chromatography, High Pressure Liquid, Clostridium/*metabolism, Fermentation, Glycerol, Hydrogen-Ion Concentration, Lactic Acid | Metabolism |
Metabolism | 21945663 | Optimization of medium compositions favoring butanol and 1,3-propanediol production from glycerol by Clostridium pasteurianum. | Moon C, Lee CH, Sang BI, Um Y | Bioresour Technol | 10.1016/j.biortech.2011.08.094 | 2011 | Analysis of Variance, Biotechnology/*methods, Butanols/*metabolism, Clostridium/*drug effects/*metabolism, Culture Media/*pharmacology, Glycerol/*metabolism, Models, Biological, Propylene Glycols/*metabolism, Regression Analysis, Reproducibility of Results | Biotechnology |
Metabolism | 22202963 | Impact of impurities in biodiesel-derived crude glycerol on the fermentation by Clostridium pasteurianum ATCC 6013. | Venkataramanan KP, Boatman JJ, Kurniawan Y, Taconi KA, Bothun GD, Scholz C | Appl Microbiol Biotechnol | 10.1007/s00253-011-3766-5 | 2011 | *Biofuels, Biotechnology/methods, Butanols/metabolism, Clostridium/growth & development/*metabolism, Fatty Acids/metabolism/*pharmacology, Fermentation/*drug effects, Glycerol/chemistry/*metabolism, Magnetic Resonance Spectroscopy, Methanol/metabolism/pharmacology, Propylene Glycols/metabolism | Biotechnology |
Genetics | 23469350 | Draft Genome Sequence of Type Strain Clostridium pasteurianum DSM 525 (ATCC 6013), a Promising Producer of Chemicals and Fuels. | Rappert S, Song L, Sabra W, Wang W, Zeng AP | Genome Announc | 10.1128/genomeA.00232-12 | 2013 | ||
23570573 | Development of an electrotransformation protocol for genetic manipulation of Clostridium pasteurianum. | Pyne ME, Moo-Young M, Chung DA, Chou CP | Biotechnol Biofuels | 10.1186/1754-6834-6-50 | 2013 | |||
Metabolism | 24637368 | Homeoviscous response of Clostridium pasteurianum to butanol toxicity during glycerol fermentation. | Venkataramanan KP, Kurniawan Y, Boatman JJ, Haynes CH, Taconi KA, Martin L, Bothun GD, Scholz C | J Biotechnol | 10.1016/j.jbiotec.2014.03.017 | 2014 | 1-Butanol/metabolism/*toxicity, Clostridium/classification/*physiology, Culture Media/chemistry, Fermentation, Gas Chromatography-Mass Spectrometry, Glycerol/*metabolism, Membrane Lipids/*metabolism, Proton Magnetic Resonance Spectroscopy | Phylogeny |
Genetics | 25103768 | Improved Draft Genome Sequence of Clostridium pasteurianum Strain ATCC 6013 (DSM 525) Using a Hybrid Next-Generation Sequencing Approach. | Pyne ME, Utturkar S, Brown SD, Moo-Young M, Chung DA, Chou CP | Genome Announc | 10.1128/genomeA.00790-14 | 2014 | ||
Metabolism | 25376371 | Electricity-driven metabolic shift through direct electron uptake by electroactive heterotroph Clostridium pasteurianum. | Choi O, Kim T, Woo HM, Um Y | Sci Rep | 10.1038/srep06961 | 2014 | Butanols/metabolism, Carbon Dioxide/*metabolism, Clostridium/*metabolism, Electricity, Electrodes, *Electrons, Fermentation, Glucose/metabolism, Glycerol/metabolism, Heterotrophic Processes/physiology, NAD/metabolism, Oxidation-Reduction, Propylene Glycols/metabolism | |
Genetics | 25700415 | Complete Genome Sequence of the Nitrogen-Fixing and Solvent-Producing Clostridium pasteurianum DSM 525. | Poehlein A, Grosse-Honebrink A, Zhang Y, Minton NP, Daniel R | Genome Announc | 10.1128/genomeA.01591-14 | 2015 | ||
Genetics | 25700419 | Closed Genome Sequence of Clostridium pasteurianum ATCC 6013. | Rotta C, Poehlein A, Schwarz K, McClure P, Daniel R, Minton NP | Genome Announc | 10.1128/genomeA.01596-14 | 2015 | ||
Metabolism | 26471284 | Continuous production of n-butanol by Clostridium pasteurianum DSM 525 using suspended and surface-immobilized cells. | Gallazzi A, Branska B, Marinelli F, Patakova P | J Biotechnol | 10.1016/j.jbiotec.2015.10.008 | 2015 | 1-Butanol/*metabolism, Batch Cell Culture Techniques, Bioreactors, Biotechnology/*methods, Cells, Immobilized/*cytology/*metabolism/ultrastructure, Clostridium/cytology/*metabolism/ultrastructure, Fermentation, Waste Products/analysis, Zea mays/chemistry | Biotechnology |
Genetics | 26705421 | Whole-genome sequence of an evolved Clostridium pasteurianum strain reveals Spo0A deficiency responsible for increased butanol production and superior growth. | Sandoval NR, Venkataramanan KP, Groth TS, Papoutsakis ET | Biotechnol Biofuels | 10.1186/s13068-015-0408-7 | 2015 | Biotechnology | |
Metabolism | 26922315 | Optimization of fermentation condition favoring butanol production from glycerol by Clostridium pasteurianum DSM 525. | Sarchami T, Johnson E, Rehmann L | Bioresour Technol | 10.1016/j.biortech.2016.02.062 | 2016 | Analysis of Variance, Biofuels, Bioreactors, Biotechnology/instrumentation/methods, Butanols/*metabolism, Clostridium/*metabolism, Fermentation, Glycerol/*metabolism, Models, Theoretical, Temperature | Biotechnology |
Metabolism | 27167856 | Influence of nutritional and operational parameters on the production of butanol or 1,3-propanediol from glycerol by a mutant Clostridium pasteurianum. | Gallardo R, Alves M, Rodrigues LR | N Biotechnol | 10.1016/j.nbt.2016.03.002 | 2016 | Biomass, Bioreactors/microbiology, Biotechnology, Butanols/*metabolism, Clostridium/genetics/*metabolism, Fermentation, Glycerol/metabolism, Industrial Microbiology, Iron/metabolism, Kinetics, Metabolic Networks and Pathways, Mutagenesis, Mutation, Propylene Glycols/*metabolism | Biotechnology |
Metabolism | 27496775 | Extending CRISPR-Cas9 Technology from Genome Editing to Transcriptional Engineering in the Genus Clostridium. | Bruder MR, Pyne ME, Moo-Young M, Chung DA, Chou CP | Appl Environ Microbiol | 10.1128/AEM.02128-16 | 2016 | Bacterial Proteins/genetics/metabolism, *CRISPR-Cas Systems, Clostridium acetobutylicum/*genetics/metabolism, Clustered Regularly Interspaced Short Palindromic Repeats, Gene Editing, Genetic Engineering/*methods, Genome, Bacterial, Transcription, Genetic | Genetics |
Phylogeny | 31199222 | Clostridium prolinivorans sp. nov., a thermophilic bacterium isolated from an anaerobic reactor degrading propionate. | Huang Y, Wei Z, Cong L, Qiu Z, Chen R, Deng Y, Zhang Y, Fan H, Ma S | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003523 | 2019 | Anaerobiosis, Bacterial Typing Techniques, Base Composition, Bioreactors/*microbiology, Clostridium/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, Propionates/metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/chemistry | Transcriptome |
Biotechnology | 31572853 | Increased Butanol Yields through Cosubstrate Fermentation of Jerusalem Artichoke Tubers and Crude Glycerol by Clostridium pasteurianum DSM 525. | Sarchami T, Rehmann L | ACS Omega | 10.1021/acsomega.9b00879 | 2019 | ||
32624940 | A novel All-in-One electrolysis electrode and bioreactor enable better study of electrochemical effects and electricity-aided bioprocesses. | Utesch T, Zeng AP | Eng Life Sci | 10.1002/elsc.201700198 | 2018 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
123 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 525) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-525 | |||
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 | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
22908 | Min Young Jung, In-Soon Park, Wonyong Kim, Hong Lim Kim, Woon Kee Paek, Young-Hyo Chang | 10.1099/ijs.0.013953-0 | Clostridium arbusti sp. nov., an anaerobic bacterium isolated from pear orchard soil | IJSEM 60: 2231-2235 2010 | 19915114 | |
50524 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 31328) | https://www.ccug.se/strain?id=31328 | |||
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 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
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 | |||
72157 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID44729.1 | StrainInfo: A central database for resolving microbial strain identifiers |