Strain identifier

BacDive ID: 1690

Type strain: No

Species: Bifidobacterium bifidum

Strain Designation: Hl 3

Strain history: <- N. Weiss, Hl 3

NCBI tax ID(s): 398515 (strain), 1681 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 8484

BacDive-ID: 1690

DSM-Number: 20215

keywords: 16S sequence, Bacteria, anaerobe, mesophilic

description: Bifidobacterium bifidum Hl 3 is an anaerobe, mesophilic bacterium that was isolated from intestine of adult.

NCBI tax id

NCBI tax idMatching level
398515strain
1681species

strain history

  • @ref: 8484
  • history: <- N. Weiss, Hl 3

doi: 10.13145/bacdive1690.20230509.8.1

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 bifidum
  • full scientific name: Bifidobacterium bifidum (Tissier 1900) Orla-Jensen 1924 (Approved Lists 1980)
  • synonyms

    @refsynonym
    20215Bacillus bifidus
    20215Bacterium bifidum

@ref: 8484

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Bifidobacteriales

family: Bifidobacteriaceae

genus: Bifidobacterium

species: Bifidobacterium bifidum

full scientific name: Bifidobacterium bifidum (Tissier 1900) Orla-Jensen 1924 emend. Nouioui et al. 2018

strain designation: Hl 3

type strain: no

Culture and growth conditions

culture medium

  • @ref: 8484
  • 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

  • @ref: 8484
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 8484
  • oxygen tolerance: anaerobe

murein

  • @ref: 8484
  • murein short key: A21.07
  • type: A4ß L-Orn-D-Ser-D-Asp

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
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
8484-----------++----------------+---------+/-----------

Isolation, sampling and environmental information

isolation

  • @ref: 8484
  • sample type: intestine of adult

isolation source categories

  • Cat1: #Host Body-Site
  • Cat2: #Gastrointestinal tract

Safety information

risk assessment

  • @ref: 8484
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Bifidobacterium bifidum DSM 20215 16S ribosomal RNA gene and 16S-23S ribosomal RNA intergenic spacer, partial sequence
  • accession: JQ347251
  • length: 743
  • database: ena
  • NCBI tax ID: 398515

External links

@ref: 8484

culture collection no.: DSM 20215

straininfo link

  • @ref: 71337
  • straininfo: 7404

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology11319112Intra- and extracellular beta-galactosidases from Bifidobacterium bifidum and B. infantis: molecular cloning, heterologous expression, and comparative characterization.Moller PL, Jorgensen F, Hansen OC, Madsen SM, Stougaard PAppl Environ Microbiol10.1128/AEM.67.5.2276-2283.20012001Amino Acid Sequence, Bifidobacterium/classification/*enzymology/genetics, Binding Sites/genetics, Escherichia coli/enzymology/genetics, Genes, Bacterial, Molecular Sequence Data, Recombinant Proteins/metabolism, Sequence Analysis, DNA, Substrate Specificity, *beta-Galactosidase/chemistry/genetics/isolation & purification/metabolismPhylogeny
Metabolism11778873High-efficiency synthesis of oligosaccharides with a truncated beta-galactosidase from Bifidobacterium bifidum.Jorgensen F, Hansen OC, Stougaard PAppl Microbiol Biotechnol10.1007/s00253-001-0845-z2001Bifidobacterium/*enzymology/genetics, Biotechnology, Escherichia coli/genetics, Hydrolysis, Lactose/metabolism, Molecular Weight, Oligosaccharides/*biosynthesis, Recombinant Proteins/chemistry/genetics/metabolism, Sequence Deletion, beta-Galactosidase/chemistry/genetics/*metabolismBiotechnology
Enzymology17684740Molecular cloning and comparative analysis of four beta-galactosidase genes from Bifidobacterium bifidum NCIMB41171.Goulas TK, Goulas AK, Tzortzis G, Gibson GRAppl Microbiol Biotechnol10.1007/s00253-007-1099-12007Amino Acid Sequence, Bacterial Proteins/chemistry/genetics/metabolism, Bifidobacterium/*enzymology/*genetics, Cloning, Molecular, Gene Expression Regulation, Bacterial, Protein Structure, Tertiary, beta-Galactosidase/chemistry/*genetics/metabolismMetabolism
Metabolism30919101The antioxidant and prebiotic properties of lactobionic acid.Goderska KAppl Microbiol Biotechnol10.1007/s00253-019-09754-72019Antioxidants/*chemistry/*metabolism, Disaccharides/*chemistry/*metabolism, Hot Temperature, Lactobacillus fermentum/growth & development/metabolism, Oxidation-Reduction, Peroxides/chemistry, Prebiotics/*analysis, Pseudomonas/*metabolism, Rapeseed Oil/chemistry, Whey/metabolism/*microbiology, Whey Proteins/metabolismStress

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8484Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20215)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20215
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
68371Automatically annotated from API 50CH acid
71337Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID7404.1StrainInfo: A central database for resolving microbial strain identifiers