Strain identifier

BacDive ID: 2755

Type strain: Yes

Species: Clostridium intestinale

Strain Designation: Catt39

Strain history: W.-K. Lee strain Catt 39.

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General

@ref: 2519

BacDive-ID: 2755

DSM-Number: 6191

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

description: Clostridium intestinale Catt39 is an anaerobe, mesophilic bacterium that was isolated from faeces of cattle.

NCBI tax id

NCBI tax idMatching level
36845species
1121320strain

strain history

@refhistory
2519<- ATCC <- T. Mitsuoka, Catt39
67770W.-K. Lee strain Catt 39.

doi: 10.13145/bacdive2755.20230509.8.1

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 intestinale
  • full scientific name: Clostridium intestinale corrig. Lee et al. 1989
  • synonyms

    • @ref: 20215
    • synonym: Clostridium intestinalis

@ref: 2519

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Clostridium

species: Clostridium intestinale

full scientific name: Clostridium intestinale Lee et al. 1989

strain designation: Catt39

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 2519
  • name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/339
  • composition: Name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
2519positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 2519
  • oxygen tolerance: anaerobe

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
2519faeces of cattleJapanJPNAsia
67770Cat feces

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_7089.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_3322;97_4075;98_5212;99_7089&stattab=map
  • Last taxonomy: Clostridium intestinale subclade
  • 16S sequence: X76740
  • Sequence Identity:
  • Total samples: 5947
  • soil counts: 990
  • aquatic counts: 625
  • animal counts: 4023
  • plant counts: 309

Safety information

risk assessment

  • @ref: 2519
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
2519Clostridium intestinale 16S rRNA gene., type strain DSM 6191TX767401385ena36845
67770Clostridium intestinale gene for 16S ribosomal RNA, partial sequence, strain: JCM 7506LC0372101482ena36845

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Clostridium intestinale DSM 6191GCA_900130055scaffoldncbi1121320
66792Clostridium intestinale DSM 61911121320.3wgspatric1121320
66792Clostridium intestinale DSM 61912585428084draftimg1121320

GC content

@refGC-content
251927.0
6777027

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes87.45no
flagellatedyes77.387no
gram-positiveyes79.272no
anaerobicyes95.828yes
aerobicno97.142yes
halophileno94.474no
spore-formingyes96.462no
thermophileno98.526yes
glucose-utilyes87.919no
glucose-fermentyes64.126no

External links

@ref: 2519

culture collection no.: DSM 6191, ATCC 49213, JCM 7506, VTT E-032440

straininfo link

  • @ref: 72285
  • straininfo: 42355

literature

  • topic: Phylogeny
  • Pubmed-ID: 21358765
  • title: Isolation and characterization of a hydrogen- and ethanol-producing Clostridium sp. strain URNW.
  • authors: Ramachandran U, Wrana N, Cicek N, Sparling R, Levin DB
  • journal: Can J Microbiol
  • DOI: 10.1139/W11-005
  • year: 2011
  • mesh: Carbon Dioxide/metabolism, Cellobiose/metabolism, Clostridium/genetics/*isolation & purification/metabolism, Culture Media, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Ethanol/*metabolism, Hydrogen/*metabolism, Hydrogen-Ion Concentration, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitle
2519Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6191)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6191
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
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)
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
72285Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID42355.1StrainInfo: A central database for resolving microbial strain identifiers