Strain identifier

BacDive ID: 131518

Type strain: Yes

Species: Bacteroides caecimuris

Strain Designation: I48

Strain history: <- Barbel Fosel, DSM <- B Stecher, Max von Pettenkofer-Inst., Munich, I48

NCBI tax ID(s): 1796613 (species)

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General

@ref: 22745

BacDive-ID: 131518

DSM-Number: 26085

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

description: Bacteroides caecimuris I48 is an anaerobe, mesophilic, rod-shaped bacterium that was isolated from intestinal content; wildtype C57BL/6 mouse.

NCBI tax id

  • NCBI tax id: 1796613
  • Matching level: species

strain history

@refhistory
22745<- B. Stecher, Max von Pettenkofer-Inst., Munich; I48
67771<- Barbel Fosel, DSM <- B Stecher, Max von Pettenkofer-Inst., Munich, I48

doi: 10.13145/bacdive131518.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Bacteroidaceae
  • genus: Bacteroides
  • species: Bacteroides caecimuris
  • full scientific name: Bacteroides caecimuris Lagkouvardos et al. 2016

@ref: 22745

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Bacteroidaceae

genus: Bacteroides

species: Bacteroides caecimuris

full scientific name: Bacteroides caecimuris Lagkouvardos et al. 2016

strain designation: I48

type strain: yes

Morphology

cell morphology

@refcell shapegram stainmotilityconfidence
67771rod-shaped
67771negative
69480no94.728
69480negative99.981

colony morphology

  • @ref: 22745
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22745CHOPPED MEAT MEDIUM (DSMZ Medium 78)yeshttps://mediadive.dsmz.de/medium/78Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water
22745COLUMBIA 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

culture temp

@refgrowthtypetemperaturerange
22745positivegrowth37mesophilic
67771positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
22745anaerobe
67771anaerobe
69480anaerobe98.905

spore formation

@refspore formationconfidence
69481no100
69480no99.993

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
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-
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
68380alpha-glucosidase+3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase+3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
22745--++-+++-+++-+--+--+----+--+-
22745--++-+++-+++-+--+--+----+--+-
22745--++-+++-+-+-+--+--+----+----
22745-++-++/-++/-+-+-+--+--+----+--+/--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
22745intestinal content; wildtype C57BL/6 mouseZurichSwitzerlandCHEEurope
67771From intestinal content, wildtype C57BL/6 mouseZurichEswatiniSWZAfrica

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Muridae (Mouse/Rat)
#Host Body-Site#Gastrointestinal tract

taxonmaps

  • @ref: 69479
  • File name: preview.99_2408.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_21;96_1298;97_1543;98_1878;99_2408&stattab=map
  • Last taxonomy: Bacteroides caecimuris subclade
  • 16S sequence: KR364741
  • Sequence Identity:
  • Total samples: 45193
  • soil counts: 555
  • aquatic counts: 825
  • animal counts: 43540
  • plant counts: 273

Safety information

risk assessment

  • @ref: 22745
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22745
  • description: Bacteroides caecimuris strain I48 16S ribosomal RNA gene, partial sequence
  • accession: KR364741
  • length: 1517
  • database: ena
  • NCBI tax ID: 1796613

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacteroides caecimuris I48GCA_001688725completencbi1796613
66792Bacteroides caecimuris I48GCA_016697125chromosomencbi1796613
66792Bacteroides caecimuris I48GCA_002221665contigncbi1796613
66792Bacteroides caecimuris I482773857902draftimg1796613
66792Bacteroides caecimuris I482718217776completeimg1796613
66792Bacteroides caecimuris I48GCA_023277905chromosomencbi1796613

GC content

@refGC-contentmethod
2274542.6sequence analysis
6777142.6genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno97.211no
flagellatedno97.211no
gram-positiveno96.559no
gram-positiveno96.559no
anaerobicyes97.877yes
anaerobicyes97.877yes
aerobicno97.226yes
aerobicno97.226yes
halophileno87.602no
halophileno87.602no
spore-formingno95.376no
spore-formingno95.376no
glucose-utilyes89.706no
glucose-utilyes89.706no
thermophileno98.845yes
thermophileno98.845yes
motileno93.299no
glucose-fermentyes69.843no
glucose-fermentyes69.843no
motileno93.299no

External links

@ref: 22745

culture collection no.: DSM 26085, KCTC 15547

straininfo link

  • @ref: 89932
  • straininfo: 402793

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
22745Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26085Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26085)
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
89932Reimer, 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-ID402793.1