Strain identifier

BacDive ID: 130932

Type strain: No

Species: Clostridium sporogenes

Strain Designation: 2PG-426-CC-2

Strain history: <- T. Clavel, TU Munich, Freising-Weihenstephan, Germany; 2PG-426-CC-2

NCBI tax ID(s): 1509 (species)

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General

@ref: 22224

BacDive-ID: 130932

DSM-Number: 29422

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic

description: Clostridium sporogenes 2PG-426-CC-2 is an anaerobe, mesophilic bacterium that was isolated from caecal content; TNFdeltaARE/+ C57BL/6 mouse.

NCBI tax id

  • NCBI tax id: 1509
  • Matching level: species

strain history

  • @ref: 22224
  • history: <- T. Clavel, TU Munich, Freising-Weihenstephan, Germany; 2PG-426-CC-2

doi: 10.13145/bacdive130932.20230509.8.1

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 sporogenes
  • full scientific name: Clostridium sporogenes (Metchnikoff 1908) Bergey et al. 1923 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Bacillus sporogenes

@ref: 22224

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Clostridium

species: Clostridium sporogenes

full scientific name: Clostridium sporogenes (Metchnikoff 1908) Bergey et al. 1923

strain designation: 2PG-426-CC-2

type strain: no

Morphology

colony morphology

  • @ref: 22224
  • incubation period: 2-3 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22224FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203)yeshttps://mediadive.dsmz.de/medium/1203Name: FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203) Composition: Horse blood 100.0 g/l Fastidious Anaerobe Agar 45.7 g/l Distilled water
22224PYG MEDIUM (MODIFIED) (DSMZ Medium 104)yeshttps://mediadive.dsmz.de/medium/104Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water

culture temp

  • @ref: 22224
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 22224
  • oxygen tolerance: anaerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838016199urea-hydrolysis
6838029016arginine+hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction

enzymes

@refvalueactivityec
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase-3.4.11.1
68380proline-arylamidase+3.4.11.5
68380L-arginine arylamidase-
68380alkaline phosphatase-3.1.3.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase-3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase-3.2.1.21
68380alpha-glucosidase+3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase-3.2.1.23
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase+3.5.3.6
68380urease-3.5.1.5

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
22224-+---+---------+/---+----------

Isolation, sampling and environmental information

isolation

  • @ref: 22224
  • sample type: caecal content; TNFdeltaARE/+ C57BL/6 mouse
  • geographic location: Freising
  • country: Germany
  • origin.country: DEU
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Muridae (Mouse/Rat)
#Host Body-Site#Gastrointestinal tract#Large intestine
#Host Body Product#Gastrointestinal tract#Caecal content

taxonmaps

  • @ref: 69479
  • File name: preview.99_324.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_226;97_248;98_277;99_324&stattab=map
  • Last taxonomy: Clostridium
  • 16S sequence: KU196083
  • Sequence Identity:
  • Total samples: 41972
  • soil counts: 4923
  • aquatic counts: 3962
  • animal counts: 31978
  • plant counts: 1109

Safety information

risk assessment

  • @ref: 22224
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22224
  • description: Clostridium sporogenes strain DSM 29422 16S ribosomal RNA gene, partial sequence
  • accession: KU196083
  • length: 1441
  • database: ena
  • NCBI tax ID: 1509

Genome sequences

  • @ref: 66792
  • description: Clostridium sporogenes DSM 29422
  • accession: GCA_024622885
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1509

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedyes60.924no
gram-positiveyes90.032no
anaerobicyes97.278no
aerobicno97.147yes
halophileno85.388no
spore-formingyes95.109no
glucose-fermentyes65.114no
thermophileno98.164yes
glucose-utilyes86.251no
motileyes87.933no

External links

@ref: 22224

culture collection no.: DSM 29422

straininfo link

  • @ref: 89409
  • straininfo: 397852

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
22224Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-29422Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29422)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68380Automatically annotated from API rID32A
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
89409Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID397852.1