Strain identifier

BacDive ID: 1741

Type strain: No

Species: Bifidobacterium tsurumiense

Strain Designation: OMB 118

Strain history: M. Okamoto OMB 118.

NCBI tax ID(s): 356829 (species)

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General

@ref: 7182

BacDive-ID: 1741

DSM-Number: 17778

keywords: 16S sequence, Bacteria, anaerobe, mesophilic

description: Bifidobacterium tsurumiense OMB 118 is an anaerobe, mesophilic bacterium that was isolated from Hamster, dental plaque.

NCBI tax id

  • NCBI tax id: 356829
  • Matching level: species

strain history

@refhistory
7182<- M. Okamoto; OMB118
67770M. Okamoto OMB 118.

doi: 10.13145/bacdive1741.20230509.8.1

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 tsurumiense
  • full scientific name: Bifidobacterium tsurumiense Okamoto et al. 2008

@ref: 7182

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Bifidobacteriales

family: Bifidobacteriaceae

genus: Bifidobacterium

species: Bifidobacterium tsurumiense

full scientific name: Bifidobacterium tsurumiense Okamoto et al. 2008

strain designation: OMB 118

type strain: no

Culture and growth conditions

culture medium

  • @ref: 7182
  • name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/58
  • composition: Name: 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

@refgrowthtypetemperaturerange
7182positivegrowth37mesophilic
67770positivegrowth35mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 7182
  • oxygen tolerance: anaerobe

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose+builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch-builds acid from28017
68371raffinose+builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371sucrose-builds acid from17992
68371melibiose+builds acid from28053
68371lactose-builds acid from17716
68371maltose-builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin+builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-fructose-builds acid from15824
68371D-glucose-builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
7182-----+------------+------+----+----+-+-+----------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
7182Hamster, dental plaqueJapanJPNAsia
67770Dental plaque from hamster fed with a high-carbohydrate diet

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Rodentia (Other)
#Host Body-Site#Oral cavity and airways#Tooth
#Host Body Product#Oral cavity and Airways#Dental plaque

taxonmaps

  • @ref: 69479
  • File name: preview.99_5384.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_24;96_2610;97_3196;98_4013;99_5384&stattab=map
  • Last taxonomy: Bifidobacterium tsurumiense subclade
  • 16S sequence: LC306968
  • Sequence Identity:
  • Total samples: 11687
  • soil counts: 69
  • aquatic counts: 80
  • animal counts: 11512
  • plant counts: 26

Safety information

risk assessment

  • @ref: 7182
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 67770
  • description: Bifidobacterium tsurumiense gene for 16S ribosomal RNA, partial sequence, strain: JCM 13496
  • accession: LC306968
  • length: 1467
  • database: ena
  • NCBI tax ID: 356829

External links

@ref: 7182

culture collection no.: DSM 17778, JCM 13496

straininfo link

  • @ref: 71388
  • straininfo: 343889

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7182Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17778)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17778
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
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/
68371Automatically annotated from API 50CH acid
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
71388Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID343889.1StrainInfo: A central database for resolving microbial strain identifiers