Strain identifier

BacDive ID: 2569

Type strain: Yes

Species: Enterocloster clostridioformis

Strain Designation: T90

Strain history: C. Kaneuchi <-- ATCC 25537 <-- L. V. Holdeman VPI 0316 <-- M. P. Bryant.

NCBI tax ID(s): 1531 (species)

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General

@ref: 471

BacDive-ID: 2569

DSM-Number: 933

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

description: Enterocloster clostridioformis T90 is an anaerobe, mesophilic bacterium that was isolated from calf rumen.

NCBI tax id

  • NCBI tax id: 1531
  • Matching level: species

strain history

@refhistory
471<- C. Kaneuchi <- ATCC <- L. Holdeman, VPI 0316 <- M.P. Bryant, T90
67770C. Kaneuchi <-- ATCC 25537 <-- L. V. Holdeman VPI 0316 <-- M. P. Bryant.

doi: 10.13145/bacdive2569.20230509.8.1

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: 471

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: T90

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 471
  • name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/110
  • composition: Name: 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

culture temp

@refgrowthtypetemperaturerange
471positivegrowth37mesophilic
46527positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
471anaerobe
46527anaerobe

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

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRE
471--+-++++++-+-++-+-+-

Isolation, sampling and environmental information

isolation

@refsample type
471calf rumen
46527Calf rumen
67770Calf rumen

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body-Site#Organ#Rumen

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: M59089
  • Sequence Identity:
  • Total samples: 73837
  • soil counts: 492
  • aquatic counts: 1136
  • animal counts: 71851
  • plant counts: 358

Safety information

risk assessment

  • @ref: 471
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Clostridium clostridioforme strain ATCC 25537 16S ribosomal RNA gene, partial sequenceJF3131091310ena1531
20218Clostridium clostridioforme strain DSM 933 16S ribosomal RNA gene, partial sequenceHM245937845ena1531
471Clostridium clostridioforme strain ATCC 25537 16S ribosomal RNA gene, partial sequenceM590891476ena1531
67770[Clostridium] clostridioforme gene for 16S ribosomal RNA, partial sequence, strain: JCM 1291LC0363101493ena1531

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792[Clostridium] clostridioforme strain NCTC112241531.20wgspatric1531
66792[Clostridium] clostridioforme strain ATCC 255371531.116wgspatric1531
66792Lachnoclostridium clostidiforme ATCC 255372593339147draftimg1531
66792Lachnoclostridium clostridioforme NCTC 112242858553787draftimg1531
67770Enterocloster clostridioformis ATCC 25537GCA_900113155scaffoldncbi1531
67770Enterocloster clostridioformis NCTC11224GCA_900447015contigncbi1531

GC content

@refGC-contentmethod
47148.8
6777048.8thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno87.44no
gram-positiveyes86.297no
anaerobicyes99.304yes
aerobicno98.007yes
halophileno81.543no
spore-formingno54.617no
glucose-utilyes91.557no
flagellatedno94.076no
thermophileno98.724no
glucose-fermentyes76.854no

External links

@ref: 471

culture collection no.: DSM 933, ATCC 25537, CCUG 16791, NCTC 11224, CIP 104318, JCM 1291, NCIMB 11018, VPI 0316, BCRC 14545, CCM 6066, VTT E-052777

straininfo link

  • @ref: 72102
  • straininfo: 92923

literature

  • topic: Metabolism
  • Pubmed-ID: 9862646
  • title: Mechanism of inhibition of tannic acid and related compounds on the growth of intestinal bacteria.
  • authors: Chung KT, Lu Z, Chou MW
  • journal: Food Chem Toxicol
  • DOI: 10.1016/s0278-6915(98)00086-6
  • year: 1998
  • mesh: Bacteria/*drug effects/growth & development/isolation & purification, Depression, Chemical, Gallic Acid/analogs & derivatives/metabolism/pharmacology, Humans, Hydrolyzable Tannins/analogs & derivatives/metabolism/*pharmacology, Intestines/*drug effects/microbiology, Iron/metabolism, Microbial Sensitivity Tests, Propyl Gallate/metabolism/pharmacology, Siderophores/metabolism
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
471Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 933)https://www.dsmz.de/collection/catalogue/details/culture/DSM-933
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
46527Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 16791)https://www.ccug.se/strain?id=16791
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/
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
72102Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92923.1StrainInfo: A central database for resolving microbial strain identifiers