Strain identifier

BacDive ID: 2576

Type strain: Yes

Species: Clostridium collagenovorans

Strain history: <- M.K. Jain and J.G. Zeikus, SG

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 1295

BacDive-ID: 2576

DSM-Number: 3089

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-positive

description: Clostridium collagenovorans DSM 3089 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from sewage sludge digester.

NCBI tax id

NCBI tax idMatching level
1121306strain
29357species

strain history

  • @ref: 1295
  • history: <- M.K. Jain and J.G. Zeikus, SG

doi: 10.13145/bacdive2576.20230509.8.1

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 collagenovorans
  • full scientific name: Clostridium collagenovorans Jain and Zeikus 1988

@ref: 1295

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Clostridium

species: Clostridium collagenovorans

full scientific name: Clostridium collagenovorans Jain and Zeikus 1988

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

Culture and growth conditions

culture medium

  • @ref: 1295
  • 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

  • @ref: 1295
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
1295anaerobe
69480anaerobe98.65

spore formation

@refspore formationconfidence
69481yes100
69480yes99.447

Isolation, sampling and environmental information

isolation

  • @ref: 1295
  • sample type: sewage sludge digester
  • geographic location: Wisconsin, Madison
  • country: USA
  • origin.country: USA
  • continent: North America

isolation source categories

Cat1Cat2Cat3
#Engineered#Biodegradation
#Engineered#Waste#Sewage sludge

Safety information

risk assessment

  • @ref: 1295
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 1295
  • description: Clostridium collagenovorans 16S rRNA gene, strain DSM 3089
  • accession: X73439
  • length: 1506
  • database: ena
  • NCBI tax ID: 29357

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Clostridium collagenovorans DSM 3089GCA_900130005scaffoldncbi1121306
66792Clostridium collagenovorans DSM 30891121306.4wgspatric1121306
66792Clostridium collagenovorans DSM 30892585428078draftimg1121306

GC content

  • @ref: 1295
  • GC-content: 24.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes73.936no
flagellatedno61.239no
gram-positiveyes87.433no
anaerobicyes98.33yes
aerobicno97.679no
halophileno78.706no
spore-formingyes95.835no
thermophileno99.398no
glucose-utilyes84.254no
glucose-fermentyes54.114no

External links

@ref: 1295

culture collection no.: DSM 3089, ATCC 49001

straininfo link

  • @ref: 72109
  • straininfo: 11831

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1295Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3089)https://www.dsmz.de/collection/catalogue/details/culture/DSM-3089
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)
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
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
72109Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID11831.1StrainInfo: A central database for resolving microbial strain identifiers