Strain identifier

BacDive ID: 2564

Type strain: Yes

Species: Clostridium cadaveris

Strain Designation: T4, TY

Strain history: CIP <- 1994, J.P. Carlier, Inst. Pasteur, Paris, France: strain TY <- A. Prévot, Inst. Pasteur, Paris, France

NCBI tax ID(s): 1529 (species)

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General

@ref: 604

BacDive-ID: 2564

DSM-Number: 1284

keywords: 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped

description: Clostridium cadaveris T4 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from Rabbit.

NCBI tax id

  • NCBI tax id: 1529
  • Matching level: species

strain history

@refhistory
604<- ATCC <- L.DS. Smith, VPI 2718 <- A. Prévot, T4
67770ATCC 25783 <-- L. DS. Smith VPI 2718 <-- A. Prévot T4.
117090CIP <- 1994, J.P. Carlier, Inst. Pasteur, Paris, France: strain TY <- A. Prévot, Inst. Pasteur, Paris, France

doi: 10.13145/bacdive2564.20230509.8.1

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 cadaveris
  • full scientific name: Clostridium cadaveris (Klein 1899) McClung and McCoy 1957 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Bacillus cadaveris

@ref: 604

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Clostridium

species: Clostridium cadaveris

full scientific name: Clostridium cadaveris (Klein 1899) McClung and McCoy 1957

strain designation: T4, TY

type strain: yes

Morphology

cell morphology

  • @ref: 117090
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: yes

colony morphology

  • @ref: 117090

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
604CHOPPED 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
34633MEDIUM 20 - for Anaerobic bacteriayesAgar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
117090CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
604positivegrowth37mesophilic
34633positivegrowth37mesophilic
47907positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
604anaerobe
47907anaerobe
117090anaerobe

spore formation

  • @ref: 117090
  • spore formation: yes

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11709015824D-fructose+degradation
11709017634D-glucose+degradation
11709017716lactose-degradation
11709017306maltose-degradation
11709017992sucrose-degradation
1170904853esculin-hydrolysis
11709017632nitrate-reduction
11709016301nitrite+reduction
117090132112sodium thiosulfate+builds gas from

metabolite production

  • @ref: 117090
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

enzymes

@refvalueactivityec
68382alpha-fucosidase+3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
117090alcohol dehydrogenase-1.1.1.1
117090gelatinase+/-
117090amylase-
117090DNase+
117090caseinase+3.4.21.50
117090catalase-1.11.1.6
117090tween esterase-
117090lecithinase-
117090lipase-
117090lysine decarboxylase-4.1.1.18
117090ornithine decarboxylase-4.1.1.17
117090protease-
117090urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
117090--++-+----++---+---+

Isolation, sampling and environmental information

isolation

@refsample type
67770Rabbit
117090Animal, Rabbit

taxonmaps

  • @ref: 69479
  • File name: preview.99_48531.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_21980;97_27446;98_34966;99_48531&stattab=map
  • Last taxonomy: Clostridium cadaveris subclade
  • 16S sequence: AB542932
  • Sequence Identity:
  • Total samples: 13554
  • soil counts: 442
  • aquatic counts: 507
  • animal counts: 12482
  • plant counts: 123

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
6042Risk group (German classification)
1170902Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Clostridium cadaveris 16S ribosomal RNAM590861461ena1529
20218Clostridium cadaveris strain DSM 1284 16S ribosomal RNA gene, partial sequenceHM245934770ena1529
604Clostridium cadaveris gene for 16S ribosomal RNA, partial sequence, strain: JCM 1392AB5429321473ena1529

GC content

@refGC-contentmethod
60427.0
6777027thermal denaturation, midpoint method (Tm)

External links

@ref: 604

culture collection no.: DSM 1284, ATCC 25783, NCIB 10676, CCUG 24035, CIP 104314, JCM 1392, VPI 2718, BCRC 14511, NCIMB 10676

straininfo link

  • @ref: 72097
  • straininfo: 38668

literature

  • topic: Genetics
  • Pubmed-ID: 32855254
  • title: Draft Genome Sequence of Clostridium cadaveris Strain AGRFS2.2, Isolated from a Bovine Dairy Farm in New Zealand.
  • authors: Gupta TB, Jauregui R, Maclean P, Nawarathana AS, Brightwell G
  • journal: Microbiol Resour Announc
  • DOI: 10.1128/MRA.00787-20
  • year: 2020
  • topic2: Phylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
604Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1284)https://www.dsmz.de/collection/catalogue/details/culture/DSM-1284
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
34633Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16209
47907Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 24035)https://www.ccug.se/strain?id=24035
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
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
72097Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID38668.1StrainInfo: A central database for resolving microbial strain identifiers
117090Curators of the CIPCollection of Institut Pasteur (CIP 104314)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104314