Strain identifier

BacDive ID: 210

Type strain: Yes

Species: Varibaculum cambriense

Strain Designation: R12359

Culture col. no.: DSM 15806, CCUG 44998, CIP 107344

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General

@ref: 6116

BacDive-ID: 210

DSM-Number: 15806

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

description: Varibaculum cambriense R12359 is an anaerobe, mesophilic bacterium that was isolated from human postauricular abscess, 27 years old male.

strain history: <- E. Falsen, CCUG <- M. D. Collins, Univ. of Reading <- V. Hall

doi: 10.13145/bacdive210.20201210.5

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinobacteria
  • domain: Bacteria
  • phylum: Actinobacteria
  • class: Actinobacteria
  • order: Actinomycetales
  • family: Actinomycetaceae
  • genus: Varibaculum
  • species: Varibaculum cambriense
  • full scientific name: Varibaculum cambriense corrig. Hall et al. 2003
  • synonyms

    • @ref: 20215
    • synonym: Varibaculum cambriensis

@ref: 6116

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Actinomycetaceae

genus: Varibaculum

species: Varibaculum cambriense

full scientific name: Varibaculum cambriense Hall et al. 2003 emend. Nouioui et al. 2018

strain designation: R12359

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6116PYG MEDIUM (MODIFIED) (DSMZ Medium 104), anaerobicyeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium104.pdf
6116COLUMBIA BLOOD MEDIUM (DSMZ Medium 693), anaerobicyeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium693.pdf
42112MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)

culture temp

@refgrowthtypetemperaturerange
6116positivegrowth37mesophilic
42112positivegrowth37mesophilic
56585positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
6116anaerobe
56585anaerobe
56585microaerophile

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
6116human postauricular abscess, 27 years old maleLondonUnited KingdomGBREurope
56585Human postauricular abscess,27-yr-old maleLondonUnited KingdomGBREurope1998

isolation source categories

Cat1Cat2Cat3
#Host#Human#Male
#Host Body-Site#Other#Abscess
#Host Body-Site#Organ#Ear

Safety information

risk assessment

  • @ref: 6116
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Varibaculum cambriensis partial 16S rRNA gene, strain CCUG 44998AJ4284021510ena184870
20218Varibaculum cambriense partial 16S rRNA gene, isolate CCUG 44998TAM0842311509ena184870
6116Varibaculum cambriensis 16S rRNA gene, type strain CCUG 44998TAJ4913261510ena184870

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Varibaculum cambriense DSM 15806GCA_000420065contigncbi1123488
66792Varibaculum cambriense UMB0744GCA_002871455scaffoldncbi184870
66792Varibaculum cambriense UMB0796GCA_002848005scaffoldncbi184870
66792Varibaculum cambriense DNF00696GCA_001553285scaffoldncbi184870
66792Varibaculum cambriense DSM 158061123488.3wgspatric1123488
66792Varibaculum cambriense strain DNF00696184870.36wgspatric184870
66792Varibaculum cambriense strain UMB0744184870.8patric184870
66792Varibaculum cambriense strain UMB0796184870.7patric184870
66792Varibaculum cambriense DSM 158062524614732permanentimg1123488

GC content

  • @ref: 6116
  • GC-content: 51.7

External links

@ref: 6116

culture collection no.: DSM 15806, CCUG 44998, CIP 107344

straininfo link

@refpassport
20218http://www.straininfo.net/strains/376966
20218http://www.straininfo.net/strains/295643
20218http://www.straininfo.net/strains/304225

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6116Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15806)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15806
20215D.Gleim, M.Kracht, N.Weiss et. al.http://www.dsmz.de/bacterial-diversity/prokaryotic-nomenclature-up-to-date.htmlProkaryotic Nomenclature Up-to-date - compilation of all names of Bacteria and Archaea, validly published according to the Bacteriological Code since 1. Jan. 1980, and validly published nomenclatural changes since
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
42112Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4769
56585Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 44998)https://www.ccug.se/strain?id=44998
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)