Strain identifier

BacDive ID: 130916

Type strain: No

Species: Enterocloster clostridioformis

Strain Designation: YL32

Strain history: <- B. Stecher, Max von Pettenkofer-Inst., Munich; YL32

NCBI tax ID(s): 1531 (species)

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General

@ref: 22208

BacDive-ID: 130916

DSM-Number: 26114

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

description: Enterocloster clostridioformis YL32 is an anaerobe, mesophilic bacterium that was isolated from C57Bl/6J wildtype mouse.

NCBI tax id

  • NCBI tax id: 1531
  • Matching level: species

strain history

  • @ref: 22208
  • history: <- B. Stecher, Max von Pettenkofer-Inst., Munich; YL32

doi: 10.13145/bacdive130916.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Lachnospiraceae
  • genus: Enterocloster
  • species: Enterocloster clostridioformis
  • full scientific name: Enterocloster clostridioformis (Burri and Ankersmit 1906) Haas and Blanchard 2020

  • synonyms

    @refsynonym
    20215Bacterium clostridiiforme
    20215Clostridium clostridiiforme
    20215Bacteroides clostridiiformis
    20215Clostridium clostridioforme

@ref: 22208

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Lachnospiraceae

genus: Enterocloster

species: Enterocloster clostridioformis

full scientific name: Enterocloster clostridioformis (Burri and Ankersmit 1906) Haas and Blanchard 2020

strain designation: YL32

type strain: no

Morphology

colony morphology

  • @ref: 22208
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22208COLUMBIA 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
22208CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)yeshttps://mediadive.dsmz.de/medium/110Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water
22208PYG 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: 22208
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 22208
  • 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
6838027897tryptophan-energy source

metabolite production

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

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
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase-3.2.1.52
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase-3.2.1.21
68380beta-Galactosidase 6-phosphate-
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
22208--------+/---------------------
22208--++----+--------------------
22208--++-+--+--------------------

Isolation, sampling and environmental information

isolation

  • @ref: 22208
  • sample type: C57Bl/6J wildtype mouse
  • geographic location: Zurich
  • country: Switzerland
  • origin.country: CHE
  • continent: Europe

isolation source categories

  • Cat1: #Host
  • Cat2: #Mammals
  • Cat3: #Muridae (Mouse/Rat)

taxonmaps

  • @ref: 69479
  • File name: preview.99_251.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16;96_176;97_190;98_213;99_251&stattab=map
  • Last taxonomy: Enterocloster clostridioformis subclade
  • 16S sequence: KR364750
  • Sequence Identity:
  • Total samples: 73837
  • soil counts: 492
  • aquatic counts: 1136
  • animal counts: 71851
  • plant counts: 358

Safety information

risk assessment

  • @ref: 22208
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22208
  • description: [Clostridium] clostridioforme strain YL32 16S ribosomal RNA gene, partial sequence
  • accession: KR364750
  • length: 1444
  • database: ena
  • NCBI tax ID: 1531

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Enterocloster clostridioformis YL32GCA_002221545contigncbi1531
66792Enterocloster clostridioformis YL32GCA_010206185contigncbi1531
66792[Clostridium] clostridioforme strain YL321531.13wgspatric1531
66792Enterocloster clostridioformis YL32GCA_016696785chromosomencbi1531

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno64.319no
gram-positiveyes75.734no
anaerobicyes99.084yes
aerobicno97.76no
halophileno89.976no
spore-formingyes77.374no
thermophileno98.611no
glucose-utilyes89.631no
motileyes78.269no
glucose-fermentyes69.716no

External links

@ref: 22208

culture collection no.: DSM 26114

straininfo link

  • @ref: 89396
  • straininfo: 406137

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
22208Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26114Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26114)
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/
89396Reimer, 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-ID406137.1