Strain identifier

BacDive ID: 131035

Type strain: No

Species: Bifidobacterium animalis

Strain Designation: YL2

Strain history: <- B. Stecher, Max von Pettenkofer-Inst., Munich; YL2

NCBI tax ID(s): 28025 (species)

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General

@ref: 22327

BacDive-ID: 131035

DSM-Number: 26074

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

description: Bifidobacterium animalis YL2 is a mesophilic bacterium that was isolated from C57BL/6J wildtype mouse.

NCBI tax id

  • NCBI tax id: 28025
  • Matching level: species

strain history

  • @ref: 22327
  • history: <- B. Stecher, Max von Pettenkofer-Inst., Munich; YL2

doi: 10.13145/bacdive131035.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Bifidobacteriales
  • family: Bifidobacteriaceae
  • genus: Bifidobacterium
  • species: Bifidobacterium animalis
  • full scientific name: Bifidobacterium animalis (Mitsuoka 1969) Scardovi and Trovatelli 1974 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Bifidobacterium longum subsp. animalis

@ref: 22327

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Bifidobacteriales

family: Bifidobacteriaceae

genus: Bifidobacterium

species: Bifidobacterium animalis

full scientific name: Bifidobacterium animalis (Mitsuoka 1969) Scardovi and Trovatelli 1974 emend. Masco et al. 2004

strain designation: YL2

type strain: no

Morphology

colony morphology

  • @ref: 22327
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22327COLUMBIA 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
22327BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)yeshttps://mediadive.dsmz.de/medium/58Name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58) Composition: Glucose 10.0 g/l Casein peptone 10.0 g/l Bacto Soytone 5.0 g/l Meat extract 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l MnSO4 x H2O 0.05 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Tween 80 Resazurin Distilled water

culture temp

  • @ref: 22327
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

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
68380glutamyl-glutamate arylamidase-
68380alanine arylamidase-3.4.11.2
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
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
22327--+/-+/--+/------+-----++-++-+-+/-+-+
22327--++-+/-+/-+/----+-----++-++-+-++-+
22327--++--+/-+/-+/--++-----++-++-+-+/-+-+/-
22327--++-+++/----+-----++-++-+/---+/---

Isolation, sampling and environmental information

isolation

  • @ref: 22327
  • 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_3607.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_24;96_259;97_283;98_316;99_3607&stattab=map
  • Last taxonomy: Bifidobacterium animalis subclade
  • 16S sequence: KR364745
  • Sequence Identity:
  • Total samples: 79510
  • soil counts: 1194
  • aquatic counts: 2336
  • animal counts: 75452
  • plant counts: 528

Safety information

risk assessment

  • @ref: 22327
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22327
  • description: Bifidobacterium animalis strain YL2 16S ribosomal RNA gene, partial sequence
  • accession: KR364745
  • length: 1528
  • database: ena
  • NCBI tax ID: 28025

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bifidobacterium animalis subsp. animalis YL2GCA_001688645completencbi302912
66792Bifidobacterium animalis YL2GCA_016696725chromosomencbi28025
66792Bifidobacterium animalis YL2GCA_023278655chromosomencbi28025
66792Bifidobacterium animalis subsp. animalis YL2GCA_002221565contigncbi302912

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno97.608no
flagellatedno97.608no
gram-positiveyes92.599no
gram-positiveyes92.599no
anaerobicyes98.248no
anaerobicyes98.248no
aerobicno97.814no
halophileno64.604no
halophileno64.604no
spore-formingno95.728no
spore-formingno95.728no
glucose-utilyes83.928no
glucose-utilyes83.928no
aerobicno97.814no
thermophileno98.15no
motileno93.728no
motileno93.728no
glucose-fermentyes81.01no
glucose-fermentyes81.01no
thermophileno98.15no

External links

@ref: 22327

culture collection no.: DSM 26074

straininfo link

  • @ref: 89505
  • straininfo: 397122

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
22327Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26074Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26074)
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/
89505Reimer, 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-ID397122.1