Strain identifier

BacDive ID: 5366

Type strain: Yes

Species: Catenibacterium mitsuokai

Strain Designation: RCA14-39

Strain history: CIP <- 2000, JCM <- Y. Benno RCA14-39

NCBI tax ID(s): 451640 (strain), 100886 (species)

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General

@ref: 6175

BacDive-ID: 5366

DSM-Number: 15897

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, rod-shaped

description: Catenibacterium mitsuokai RCA14-39 is an anaerobe, mesophilic, rod-shaped bacterium that was isolated from human faeces.

NCBI tax id

NCBI tax idMatching level
100886species
451640strain

strain history

@refhistory
6175<- JCM <- Y. Benno; RCA14-39
67770Y. Benno RCA14-39.
120977CIP <- 2000, JCM <- Y. Benno RCA14-39

doi: 10.13145/bacdive5366.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Erysipelotrichia
  • order: Erysipelotrichales
  • family: Coprobacillaceae
  • genus: Catenibacterium
  • species: Catenibacterium mitsuokai
  • full scientific name: Catenibacterium mitsuokai Kageyama and Benno 2000

@ref: 6175

domain: Bacteria

phylum: Firmicutes

class: Erysipelotrichia

order: Erysipelotrichales

family: Coprobacillaceae

genus: Catenibacterium

species: Catenibacterium mitsuokai

full scientific name: Catenibacterium mitsuokai Kageyama and Benno 2000

strain designation: RCA14-39

type strain: yes

Morphology

cell morphology

  • @ref: 120977
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 120977

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6175CHOPPED 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
6175PYG 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

@refgrowthtypetemperaturerange
6175positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
6175anaerobe
120977anaerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1209774853esculin-hydrolysis
12097717632nitrate-reduction
12097716301nitrite-reduction
12097717632nitrate+respiration

metabolite production

  • @ref: 120977
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
120977oxidase-
120977beta-galactosidase-3.2.1.23
120977gelatinase-
120977amylase+
120977DNase-
120977caseinase-3.4.21.50
120977catalase+1.11.1.6
120977tween esterase-
120977lecithinase-
120977lipase-
120977protease-
120977urease-3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentisolation date
6175human faecesPapua New GuineaPNGAustralia and Oceania
67770Papua New Guinea highlanders' faeces
120977Human, FaecesPapua New GuineaPNGAustralia and Oceania1982

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Gastrointestinal tract#Feces (Stool)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
61751Risk group (German classification)
1209771Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Catenibacterium mitsuokai gene for 16S ribosomal RNA, partial sequenceAB9107381491ena451640
6175Catenibacterium mitsuokai gene for 16S rRNA, strain:JCM 10609AB0302241485ena451640

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Catenibacterium mitsuokai DSM 15897451640.67wgspatric451640
66792Catenibacterium mitsuokai DSM 15897643886110draftimg451640
67770Catenibacterium mitsuokai DSM 15897GCA_000173795contigncbi451640
66792Catenibacterium mitsuokai DSM 15897GCA_025148785completencbi100886
66792Catenibacterium mitsuokai strain DSM 15897100886.347completepatric100886

GC content

@refGC-contentmethod
617536-39
6777036.6high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno92.901no
flagellatedno95.832no
gram-positiveyes93.659no
anaerobicyes98.936yes
aerobicno99.185yes
halophileno66.615no
spore-formingno87.755no
glucose-fermentyes71.297no
thermophileno96.982yes
glucose-utilyes86.416no

External links

@ref: 6175

culture collection no.: DSM 15897, CIP 106738, JCM 10609

straininfo link

  • @ref: 74856
  • straininfo: 88233

literature

  • topic: Phylogeny
  • Pubmed-ID: 10939666
  • title: Catenibacterium mitsuokai gen. nov., sp. nov., a gram-positive anaerobic bacterium isolated from human faeces.
  • authors: Kageyama A, Benno Y
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-50-4-1595
  • year: 2000
  • mesh: Anaerobiosis, Base Composition, Cell Wall/chemistry, Cloning, Molecular, DNA, Bacterial/analysis/chemistry, DNA, Ribosomal/genetics, Feces/*microbiology, Gram-Positive Bacteria/*classification/genetics/growth & development, Humans, Molecular Sequence Data, Peptidoglycan, Phylogeny, RNA, Ribosomal, 16S/genetics
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6175Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15897)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15897
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
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/
74856Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID88233.1StrainInfo: A central database for resolving microbial strain identifiers
120977Curators of the CIPCollection of Institut Pasteur (CIP 106738)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106738