Strain identifier

BacDive ID: 159983

Type strain: No

Species: Bacteroides fragilis

Strain Designation: 638R/pIP417(nimA)

Strain history: <- K. Foerster-Fromme, Curetis GmbH, Holzgerlingen, Germany; 638R/pIP417(nimA) <- S. Trinh and A. Haggoud, Institut Pasteur, Paris

NCBI tax ID(s): 817 (species)

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General

@ref: 66887

BacDive-ID: 159983

DSM-Number: 103646

keywords: 16S sequence, Bacteria, mesophilic

description: Bacteroides fragilis 638R/pIP417 is a mesophilic bacterium that was isolated from Introduction of plasmid pIP417 from Bacteroides vulgatus to Bacteroides fragilis by conjugational transfer.

NCBI tax id

  • NCBI tax id: 817
  • Matching level: species

strain history

  • @ref: 66887
  • history: <- K. Foerster-Fromme, Curetis GmbH, Holzgerlingen, Germany; 638R/pIP417(nimA) <- S. Trinh and A. Haggoud, Institut Pasteur, Paris

doi: 10.13145/bacdive159983.20230509.8.1

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 fragilis
  • full scientific name: Bacteroides fragilis (Veillon and Zuber 1898) Castellani and Chalmers 1919 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Bacillus fragilis

@ref: 66887

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Bacteroidaceae

genus: Bacteroides

species: Bacteroides fragilis

full scientific name: Bacteroides fragilis (Veillon and Zuber 1898) Castellani and Chalmers 1919 emend. Hahnke et al. 2016

strain designation: 638R/pIP417(nimA)

type strain: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
66887FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a)yeshttps://mediadive.dsmz.de/medium/1203aName: FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a) Composition: Fastidious Anaerobe Basal Broth 35.4 g/l Distilled water
66887COLUMBIA 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

  • @ref: 66887
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose+fermentation
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-
68380glutamyl-glutamate arylamidase+
68380glycin arylamidase-
68380alanine arylamidase+3.4.11.2
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase+3.4.11.1
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-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase+3.2.1.21
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
66887--++-++--+++++--++-++/-+-+/-+-+/-+-

Isolation, sampling and environmental information

isolation

  • @ref: 66887
  • sample type: Introduction of plasmid pIP417 from Bacteroides vulgatus to Bacteroides fragilis by conjugational transfer
  • geographic location: Institut Pasteur, Paris
  • country: France
  • origin.country: FRA
  • continent: Europe
  • latitude: 48.8408
  • longitude: 2.3108

taxonmaps

  • @ref: 69479
  • File name: preview.99_40.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_21;96_34;97_35;98_38;99_40&stattab=map
  • Last taxonomy: Bacteroides fragilis subclade
  • 16S sequence: FQ312004
  • Sequence Identity:
  • Total samples: 221995
  • soil counts: 2825
  • aquatic counts: 7159
  • animal counts: 211201
  • plant counts: 810

Safety information

risk assessment

  • @ref: 66887
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 66887
  • description: Bacteroides fragilis 638R genome
  • accession: FQ312004
  • length: 5373121
  • database: ena
  • NCBI tax ID: 862962

External links

@ref: 66887

culture collection no.: DSM 103646

straininfo link

  • @ref: 112265
  • straininfo: 407558

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
66887Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-103646Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103646)
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/
112265Reimer, 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-ID407558.1