Strain identifier

BacDive ID: 2720

Type strain: Yes

Species: Clostridium subterminale

Strain history: ATCC 25774 <-- L. DS. Smith VPI 2023 (CDC KA 152).

NCBI tax ID(s): 1550 (species)

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General

@ref: 2930

BacDive-ID: 2720

DSM-Number: 6970

keywords: 16S sequence, Bacteria, anaerobe, mesophilic

description: Clostridium subterminale DSM 6970 is an anaerobe, mesophilic bacterium of the family Clostridiaceae.

NCBI tax id

  • NCBI tax id: 1550
  • Matching level: species

strain history

@refhistory
2930<- A. Rimbault; <- ATCC; ATCC 25774 <- L. DS. Smith; VPI 2023
67770ATCC 25774 <-- L. DS. Smith VPI 2023 (CDC KA 152).

doi: 10.13145/bacdive2720.20230509.8.1

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 subterminale
  • full scientific name: Clostridium subterminale (Hall and Whitehead 1927) Spray 1948 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Bacillus subterminalis

@ref: 2930

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Clostridium

species: Clostridium subterminale

full scientific name: Clostridium subterminale (Hall and Whitehead 1927) Spray 1948

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2930CHOPPED MEAT MEDIUM (DSMZ Medium 78)yeshttps://mediadive.dsmz.de/medium/78Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water
2930FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a)yeshttps://mediadive.dsmz.de/medium/1203aName: FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a) Composition: Fastidious Anaerobe Basal Broth 35.4 g/l Distilled water
2930COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

culture temp

@refgrowthtypetemperaturerange
2930positivegrowth37mesophilic
47506positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
2930anaerobe
47506anaerobe

compound production

  • @ref: 2930
  • compound: methyl sulfides

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836727082trehalose-builds acid from
6836762345L-rhamnose-builds acid from
6836730911sorbitol-builds acid from
6836716634raffinose-builds acid from
683676731melezitose-builds acid from
6836716024D-mannose-builds acid from
6836717057cellobiose-builds acid from
6836717754glycerol-builds acid from
683674853esculin+hydrolysis
683675291gelatin+hydrolysis
6836730849L-arabinose-builds acid from
6836765327D-xylose-builds acid from
6836717814salicin-builds acid from
6836717306maltose-builds acid from
6836717992sucrose-builds acid from
6836717716lactose-builds acid from
6836716899D-mannitol-builds acid from
6836717634D-glucose-builds acid from
6836716199urea-hydrolysis
6836727897tryptophan-energy source

metabolite production

  • @ref: 68367
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68367
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68367beta-glucosidase+3.2.1.21
68367gelatinase+
68367urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    47506C14:012.514
    47506C16:029.616
    47506C18:0418
    47506C13:0 iso1.112.612
    47506C15:0 ANTEISO1.414.711
    47506C15:0 ISO1.814.621
    47506C16:0 aldehyde2.614.949
    47506C16:1 ω7c4.715.819
    47506C16:1 ω7c DMA316.288
    47506C16:1 ω9c3.215.774
    47506C16:1 ω9c DMA1.616.242
    47506C17:1 ISO I/C16:0 DMA816.481
    47506C18:1 ω6c2.317.858
    47506C18:1 ω7c /12t/9t1.917.824
    47506C18:1 ω9c7.117.769
    47506C18:1 ω9c DMA2.118.226
    47506C18:2 ω6,9c/C18:0 ANTE12.117.724
    47506unknown 18.177118.177
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRE
2930----------++--------

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_1064.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_614;97_717;98_836;99_1064&stattab=map
  • Last taxonomy: Clostridium
  • 16S sequence: L37595
  • Sequence Identity:
  • Total samples: 25309
  • soil counts: 12801
  • aquatic counts: 4474
  • animal counts: 5452
  • plant counts: 2582

Safety information

risk assessment

  • @ref: 2930
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Clostridium subterminale strain ATCC 25774 16S ribosomal RNA gene, partial sequenceDQ911252320ena1550
20218Clostridium subterminale 16S ribosomal RNA (16S rRNA) geneL375951448ena1550
20218Clostridium subterminale 16S ribosomal RNAM591061464ena1550
20218Clostridium subterminale gene for 16S rRNA, partial sequence, strain: DSM 6970AB2941371452ena1550
20218Clostridium subterminale gene for 16S ribosomal RNA, partial sequence, strain: JCM 1417AB5384301470ena1550
20218C.subterminale rrn gene for 16S rRNAX684511516ena1550
2930Clostridium subterminale isolate DSM 6970 16S ribosomal RNA gene, partial sequenceAF2418441504ena1550
67770X685101516ena

External links

@ref: 2930

culture collection no.: DSM 6970, ATCC 25774, CDC KA152, CCUG 21841, VPI 2023, JCM 1417, BCRC 14486, NCIMB 10746

straininfo link

  • @ref: 72248
  • straininfo: 38662

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12361247Clostridium thiosulfatireducens sp. nov., a proteolytic, thiosulfate- and sulfur-reducing bacterium isolated from an upflow anaerobic sludge blanket (UASB) reactor.Hernandez-Eugenio G, Fardeau ML, Cayol JL, Patel BKC, Thomas P, Macarie H, Garcia JL, Ollivier BInt J Syst Evol Microbiol10.1099/00207713-52-5-14612002Anaerobiosis, Bioreactors, Clostridium/*classification/isolation & purification/metabolism, DNA, Bacterial/genetics, Endopeptidases/metabolism, Fermentation, Genotype, Industrial Waste, Microscopy, Electron, Molecular Sequence Data, Oxidation-Reduction, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Species Specificity, Sulfur/metabolism, Thiosulfates/metabolismMetabolism
Phylogeny16585682Clostridium schirmacherense sp. nov., an obligately anaerobic, proteolytic, psychrophilic bacterium isolated from lake sediment of Schirmacher Oasis, Antarctica.Alam SI, Dixit A, Reddy GSN, Dube S, Palit M, Shivaji S, Singh LInt J Syst Evol Microbiol10.1099/ijs.0.63808-02006Amino Acids/metabolism, Bacteria, Anaerobic, Clostridium/*classification/genetics/isolation & purification/metabolism, Cold Temperature, DNA, Bacterial/analysis, Fermentation, Geologic Sediments, Molecular Sequence Data, Peptides/*metabolism, RNA, Ribosomal, 16S/genetics, *Water MicrobiologyMetabolism
Phylogeny19542123Clostridium sulfidigenes sp. nov., a mesophilic, proteolytic, thiosulfate- and sulfur-reducing bacterium isolated from pond sediment.Sallam A, Steinbuchel AInt J Syst Evol Microbiol10.1099/ijs.0.004986-02009Bacterial Proteins, Bacterial Typing Techniques, Base Composition, Clostridium/*classification/genetics/isolation & purification/metabolism, DNA, Bacterial/analysis, Fresh Water/*microbiology, Genes, rRNA, Genotype, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidation-Reduction, Peptide Hydrolases/*metabolism, Phenotype, Phylogeny, Plant Proteins/metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Sulfur-Reducing Bacteria/*classification/genetics/isolation & purification, Thiosulfates/*metabolismMetabolism
Phylogeny25230767Clostridium huakuii sp. nov., an anaerobic, acetogenic bacterium isolated from methanogenic consortia.Ruan Z, Wang Y, Zhang C, Song J, Zhai Y, Zhuang Y, Wang H, Chen X, Li Y, Zhao B, Zhao BInt J Syst Evol Microbiol10.1099/ijs.0.062711-02014Bacterial Typing Techniques, Base Composition, *Biofuels, China, Clostridium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny26419229Clostridium punense sp. nov., an obligate anaerobe isolated from healthy human faeces.Lanjekar VB, Marathe NP, Shouche YS, Ranade DRInt J Syst Evol Microbiol10.1099/ijsem.0.0006442015Bacterial Typing Techniques, Base Composition, Clostridium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Feces/*microbiology, Fermentation, Humans, India, Male, Middle Aged, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAPathogenicity
Phylogeny34297170Clostridium culturomicium sp. nov. and Clostridium jeddahitimonense sp. nov., novel members of the Clostridium genus isolated from the stool of an obese Saudi Arabian.Kieu HT, Garrigou N, Fadlane A, Brechard L, Armstrong N, Decloquement P, Yasir M, Azhar EI, Al-Masaudi SB, Lagier JC, Tidjani Alou M, Raoult DCurr Microbiol10.1007/s00284-021-02616-42021Bacterial Typing Techniques, *Clostridium/genetics, DNA, Bacterial/genetics, *Fatty Acids, Humans, Male, Obesity, Phylogeny, RNA, Ribosomal, 16S/genetics, Saudi Arabia, Sequence Analysis, DNAPathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2930Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6970)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6970
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
47506Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 21841)https://www.ccug.se/strain?id=21841
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68367Automatically annotated from API 20A
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
72248Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID38662.1StrainInfo: A central database for resolving microbial strain identifiers