Strain identifier

BacDive ID: 2626

Type strain: Yes

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)

For citation purpose refer to the digital object identifier (doi) of the current version.
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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 idMatching level
1262449strain
1501species

strain history

@refhistory
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
67770ATCC 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

@refmotilityconfidencegram stain
69480yes94.639
69480100positive

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

@refgrowthtypetemperaturerange
22908positivemaximum45thermophilic
22908positiveminimum25mesophilic
22908positivegrowth32mesophilic
123positivegrowth37mesophilic
50524positivegrowth37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepH
22908positivemaximum7.8
22908positiveminimum4.7
22908positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
123anaerobe
50524anaerobe
69480anaerobe99.695

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
123D gluconate dehydratase
123granulose phosphorylase
123hydrogenase
123invertase
123ß ketothiolase
1231 phosphofructokinase
123sorbitol-6-phosphate dehydrogenase
123ferredoxin
123flavodoxin
1232-keto-3-D gluconate
123polysaccharides
123rubredoxin
123squalene
123restriction endonuclease ThaI

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2290817057cellobiose+growth
2290816899D-mannitol+growth
229086731melezitose+growth
2290863150D-rhamnose+growth
2290817924D-sorbitol+growth
2290865327D-xylose+growth
2290817754glycerol+growth
2290830849L-arabinose+growth
2290817716lactose+growth
2290817814salicin+growth
2290827082trehalose+growth

enzymes

@refvalueactivityec
22908acid phosphatase-3.1.3.2
22908alkaline phosphatase-3.1.3.1
22908alpha-galactosidase-3.2.1.22
22908beta-galactosidase-3.2.1.23
22908beta-glucosidase-3.2.1.21
22908glutamate 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

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218{16S/23S ribosomal DNA spacer region} [Clostridium pasteurianum, DSM 525, Genomic, 275 nt]S51966275ena1501
123Clostridium pasteurianum strain DSM 525 16S ribosomal RNA gene, partial sequenceDQ911268320ena1262449
67770Clostridium pasteurianum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1408AB5367731468ena1262449
67770Clostridium pasteurianum partial 16S rRNA gene, type strain CECT 377TFR8704401491ena1262449
67770C.pasteurianum small subunit ribosomal RNAM239301511ena1501

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Clostridium pasteurianum DSM 525 = ATCC 6013GCA_001856645completencbi1262449
66792Clostridium pasteurianum DSM 525 = ATCC 6013GCA_000807255completencbi1262449
66792Clostridium pasteurianum DSM 525 = ATCC 6013GCA_000807175completencbi1262449
66792Clostridium pasteurianum DSM 5251262449.3wgspatric1262449
66792Clostridium pasteurianum DSM 525 = ATCC 60131262449.7completepatric1262449
66792Clostridium pasteurianum DSM 525 = ATCC 60131262449.5wgspatric1262449
66792Clostridium pasteurianum DSM 525 = ATCC 60131262449.10completepatric1262449
66792Clostridium pasteurianum DSM 525 = ATCC 60131262449.8completepatric1262449
66792Clostridium pasteurianum strain M150B1501.9completepatric1501
66792Clostridium pasteurianum DSM 525, ATCC 60132531839097draftimg1262449
66792Clostridium pasteurianum DSM 525, ATCC 60132627854235completeimg1262449
66792Clostridium pasteurianum ATCC60132600254951draftimg1262449
66792Clostridium pasteurianum DSM 525 = ATCC 60132627853721completeimg1262449
67770Clostridium pasteurianum DSM 525 = ATCC 6013GCA_000330945contigncbi1262449
67770Clostridium pasteurianum DSM 525 = ATCC 6013GCA_000724205contigncbi1262449

GC content

@refGC-contentmethod
2290826-28high performance liquid chromatography (HPLC)
12329.8sequence analysis
6777026thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedyes58.885no
gram-positiveyes85.703no
anaerobicyes95.932yes
aerobicno93.948no
halophileno96.016no
spore-formingyes94.913no
thermophileno92.916no
glucose-utilyes89.114no
motileyes80.891no
glucose-fermentyes59.084no

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

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology3269388Restriction endonucleases in Clostridium pasteurianum ATCC 6013 and C. thermohydrosulfuricum DSM 568.Richards DF, Linnett PE, Oultram JD, Young MJ Gen Microbiol10.1099/00221287-134-12-31511988Clostridium/*enzymology/genetics, Deoxyribonucleases, Type II Site-Specific/*analysis, Electrophoresis, Agar Gel
Enzymology4157120Mobilization of granulose in Clostridium pasteurianum. Purification and properties of granulose phosphorylase.Robson RL, Morris JGBiochem J10.1042/bj14405131974Adenosine 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 GlucoseMetabolism
Phylogeny6863221Regeneration of protoplasts of Clostridium pasteurianum ATCC 6013.Minton NP, Morris JGJ Bacteriol10.1128/jb.155.1.432-434.19831983Clostridium/*physiology, Muramidase/metabolism, Mutation, Protoplasts/*physiology, Species SpecificityMetabolism
Genetics8334167Organization of potential alternative nitrogenase genes from Clostridium pasteurianum.Zinoni F, Robson RM, Robson RLBiochim Biophys Acta10.1016/0167-4781(93)90096-v1993Amino Acid Sequence, Base Sequence, Clostridium/*genetics, Molecular Sequence Data, Nitrogenase/chemistry/*genetics, Open Reading Frames
Metabolism16028199Arylsulfonates as sole source of sulfur for Clostridium pasteurianum DSM 12136.Chien CCJ Basic Microbiol10.1002/jobm.2004104902005Arylsulfonates/*metabolism, Clostridium/*metabolism, Sulfur/*metabolism
Biotechnology21316947Butanol production from thin stillage using Clostridium pasteurianum.Ahn JH, Sang BI, Um YBioresour Technol10.1016/j.biortech.2011.01.0462011Biotechnology/*methods, Butanols/*metabolism, Chromatography, High Pressure Liquid, Clostridium/*metabolism, Fermentation, Glycerol, Hydrogen-Ion Concentration, Lactic AcidMetabolism
Metabolism21945663Optimization of medium compositions favoring butanol and 1,3-propanediol production from glycerol by Clostridium pasteurianum.Moon C, Lee CH, Sang BI, Um YBioresour Technol10.1016/j.biortech.2011.08.0942011Analysis of Variance, Biotechnology/*methods, Butanols/*metabolism, Clostridium/*drug effects/*metabolism, Culture Media/*pharmacology, Glycerol/*metabolism, Models, Biological, Propylene Glycols/*metabolism, Regression Analysis, Reproducibility of ResultsBiotechnology
Metabolism22202963Impact 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 CAppl Microbiol Biotechnol10.1007/s00253-011-3766-52011*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/metabolismBiotechnology
Genetics23469350Draft 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 APGenome Announc10.1128/genomeA.00232-122013
23570573Development of an electrotransformation protocol for genetic manipulation of Clostridium pasteurianum.Pyne ME, Moo-Young M, Chung DA, Chou CPBiotechnol Biofuels10.1186/1754-6834-6-502013
Metabolism24637368Homeoviscous 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 CJ Biotechnol10.1016/j.jbiotec.2014.03.01720141-Butanol/metabolism/*toxicity, Clostridium/classification/*physiology, Culture Media/chemistry, Fermentation, Gas Chromatography-Mass Spectrometry, Glycerol/*metabolism, Membrane Lipids/*metabolism, Proton Magnetic Resonance SpectroscopyPhylogeny
Genetics25103768Improved 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 CPGenome Announc10.1128/genomeA.00790-142014
Metabolism25376371Electricity-driven metabolic shift through direct electron uptake by electroactive heterotroph Clostridium pasteurianum.Choi O, Kim T, Woo HM, Um YSci Rep10.1038/srep069612014Butanols/metabolism, Carbon Dioxide/*metabolism, Clostridium/*metabolism, Electricity, Electrodes, *Electrons, Fermentation, Glucose/metabolism, Glycerol/metabolism, Heterotrophic Processes/physiology, NAD/metabolism, Oxidation-Reduction, Propylene Glycols/metabolism
Genetics25700415Complete Genome Sequence of the Nitrogen-Fixing and Solvent-Producing Clostridium pasteurianum DSM 525.Poehlein A, Grosse-Honebrink A, Zhang Y, Minton NP, Daniel RGenome Announc10.1128/genomeA.01591-142015
Genetics25700419Closed Genome Sequence of Clostridium pasteurianum ATCC 6013.Rotta C, Poehlein A, Schwarz K, McClure P, Daniel R, Minton NPGenome Announc10.1128/genomeA.01596-142015
Metabolism26471284Continuous production of n-butanol by Clostridium pasteurianum DSM 525 using suspended and surface-immobilized cells.Gallazzi A, Branska B, Marinelli F, Patakova PJ Biotechnol10.1016/j.jbiotec.2015.10.00820151-Butanol/*metabolism, Batch Cell Culture Techniques, Bioreactors, Biotechnology/*methods, Cells, Immobilized/*cytology/*metabolism/ultrastructure, Clostridium/cytology/*metabolism/ultrastructure, Fermentation, Waste Products/analysis, Zea mays/chemistryBiotechnology
Genetics26705421Whole-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 ETBiotechnol Biofuels10.1186/s13068-015-0408-72015Biotechnology
Metabolism26922315Optimization of fermentation condition favoring butanol production from glycerol by Clostridium pasteurianum DSM 525.Sarchami T, Johnson E, Rehmann LBioresour Technol10.1016/j.biortech.2016.02.0622016Analysis of Variance, Biofuels, Bioreactors, Biotechnology/instrumentation/methods, Butanols/*metabolism, Clostridium/*metabolism, Fermentation, Glycerol/*metabolism, Models, Theoretical, TemperatureBiotechnology
Metabolism27167856Influence 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 LRN Biotechnol10.1016/j.nbt.2016.03.0022016Biomass, Bioreactors/microbiology, Biotechnology, Butanols/*metabolism, Clostridium/genetics/*metabolism, Fermentation, Glycerol/metabolism, Industrial Microbiology, Iron/metabolism, Kinetics, Metabolic Networks and Pathways, Mutagenesis, Mutation, Propylene Glycols/*metabolismBiotechnology
Metabolism27496775Extending CRISPR-Cas9 Technology from Genome Editing to Transcriptional Engineering in the Genus Clostridium.Bruder MR, Pyne ME, Moo-Young M, Chung DA, Chou CPAppl Environ Microbiol10.1128/AEM.02128-162016Bacterial Proteins/genetics/metabolism, *CRISPR-Cas Systems, Clostridium acetobutylicum/*genetics/metabolism, Clustered Regularly Interspaced Short Palindromic Repeats, Gene Editing, Genetic Engineering/*methods, Genome, Bacterial, Transcription, GeneticGenetics
Phylogeny31199222Clostridium 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 SInt J Syst Evol Microbiol10.1099/ijsem.0.0035232019Anaerobiosis, 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/chemistryTranscriptome
Biotechnology31572853Increased Butanol Yields through Cosubstrate Fermentation of Jerusalem Artichoke Tubers and Crude Glycerol by Clostridium pasteurianum DSM 525.Sarchami T, Rehmann LACS Omega10.1021/acsomega.9b008792019
32624940A novel All-in-One electrolysis electrode and bioreactor enable better study of electrochemical effects and electricity-aided bioprocesses.Utesch T, Zeng APEng Life Sci10.1002/elsc.2017001982018

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
123Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 525)https://www.dsmz.de/collection/catalogue/details/culture/DSM-525
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
22908Min Young Jung, In-Soon Park, Wonyong Kim, Hong Lim Kim, Woon Kee Paek, Young-Hyo Chang10.1099/ijs.0.013953-0Clostridium arbusti sp. nov., an anaerobic bacterium isolated from pear orchard soilIJSEM 60: 2231-2235 201019915114
50524Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 31328)https://www.ccug.se/strain?id=31328
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69479João 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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
72157Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID44729.1StrainInfo: A central database for resolving microbial strain identifiers