Strain identifier

BacDive ID: 5763

Type strain: No

Species: Fusobacterium vincentii

Strain Designation: SOR, OR

Strain history: CIP <- 1996, NCTC <- F.N. Guillermet: strain OR <- H. Beerens

NCBI tax ID(s): 1196653 (strain), 155615 (subspecies)

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General

@ref: 8138

BacDive-ID: 5763

DSM-Number: 19508

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, rod-shaped

description: Fusobacterium vincentii SOR is an anaerobe, mesophilic, rod-shaped bacterium that was isolated from sinusitis in upper jaw.

NCBI tax id

NCBI tax idMatching level
1196653strain
155615subspecies

strain history

@refhistory
8138<- JCM <- CIP <- NCTC <- F. N. Guillermet; SOR <- H. Beerens
67770CIP 104878 <-- NCTC 11326 <-- F. N. Guillrermet strain OR <-- H. Beerens.
121368CIP <- 1996, NCTC <- F.N. Guillermet: strain OR <- H. Beerens

doi: 10.13145/bacdive5763.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/fusobacteriota
  • domain: Bacteria
  • phylum: Fusobacteriota
  • class: Fusobacteriia
  • order: Fusobacteriales
  • family: Fusobacteriaceae
  • genus: Fusobacterium
  • species: Fusobacterium vincentii
  • full scientific name: Fusobacterium vincentii (Dzink et al. 1990 ex Knorr 1922) Kook et al. 2022

  • synonyms

    @refsynonym
    20215Fusobacterium nucleatum subsp. fusiforme
    20215Fusobacterium nucleatum subsp. vincentii

@ref: 8138

domain: Bacteria

phylum: Fusobacteria

class: Fusobacteriia

order: Fusobacteriales

family: Fusobacteriaceae

genus: Fusobacterium

species: Fusobacterium vincentii

full scientific name: Fusobacterium nucleatum subsp. vincentii (ex Knorr 1922) Dzink et al. 1990

strain designation: SOR, OR

type strain: no

Morphology

cell morphology

@refcell shapegram stainconfidence
68367rod-shaped
68367negative
69480negative99.807

colony morphology

  • @ref: 51233
  • incubation period: 2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8138CHOPPED MEAT MEDIUM (DSMZ Medium 78)yeshttps://mediadive.dsmz.de/medium/78Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water
8138COLUMBIA 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
41355MEDIUM 20 - for Anaerobic bacteriayesAgar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
121368CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
8138positivegrowth37mesophilic
41355positivegrowth37mesophilic
51233positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8138anaerobe
51233anaerobe
69480anaerobe99.474

spore formation

@refspore formationconfidence
68367no
69480no99.994

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836727082trehalose-builds acid from
6836762345L-rhamnose-builds acid from
6836730911sorbitol-builds acid from
6836716634raffinose-builds acid from
683676731melezitose-builds acid from
6836716024D-mannose-builds acid from
6836717057cellobiose-builds acid from
6836717754glycerol-builds acid from
683674853esculin+hydrolysis
683675291gelatin-hydrolysis
6836730849L-arabinose-builds acid from
6836765327D-xylose-builds acid from
6836717814salicin-builds acid from
6836717306maltose-builds acid from
6836717992sucrose-builds acid from
6836717716lactose-builds acid from
6836716899D-mannitol-builds acid from
6836717634D-glucose+builds acid from
6836716199urea-hydrolysis
6836727897tryptophan+energy source
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838017632nitrate-reduction
6838027897tryptophan+energy source

metabolite production

@refChebi-IDmetaboliteproduction
6836735581indoleyes
6838035581indoleyes

metabolite tests

@refChebi-IDmetaboliteindole test
6838035581indole+
6836735581indole+

enzymes

@refvalueactivityec
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380tyrosine arylamidase-
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
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
68367catalase-1.11.1.6
68367beta-glucosidase+3.2.1.21
68367gelatinase-
68367urease-3.5.1.5

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRECATSPORGRAMCOCC
8138+-+--------+------------

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
51233------------+--+----------+--
8138---------------+-------------

Isolation, sampling and environmental information

isolation

@refsample typesampling date
8138sinusitis in upper jaw
51233Human upper jaw,sinusitis1976
67770Human oral cavity
121368Sinusitis in upper jaw

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Host Body-Site#Oral cavity and airways#Mouth

taxonmaps

  • @ref: 69479
  • File name: preview.99_1685.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_140;96_436;97_498;98_572;99_1685&stattab=map
  • Last taxonomy: Fusobacterium
  • 16S sequence: AM849219
  • Sequence Identity:
  • Total samples: 1041
  • soil counts: 4
  • aquatic counts: 3
  • animal counts: 1032
  • plant counts: 2

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
81382Risk group (German classification)
1213681Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Fusobacterium nucleatum subsp. vincentii gene for 16S ribosomal RNA, partial sequence, strain: JCM 11024AB5409891480ena1196653
20218Fusobacterium nucleatum subsp. fusiforme 16S rRNA gene, type strain DSM 19508AM8492191495ena1196653
20218Fusobacterium nucleatum subsp. fusiforme strain ATCC 51190 16S ribosomal RNA gene, partial sequenceFJ196708838ena1196653
20218Fusobacterium nucleatum subsp. fusiforme strain ATCC 51190 16S ribosomal RNA gene, partial sequenceGQ3010411441ena1196653
20218Fusobacterium nucleatum subsp. fusiforme strain ATCC 51190 16S ribosomal RNA gene, partial sequenceHM3470731400ena1196653
20218Fusobacterium nucleatum subsp. fusiforme small subunit ribosomal RNAX554031331ena1196653

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Fusobacterium nucleatum subsp. fusiforme ATCC 511901196653.3wgspatric1196653
66792Fusobacterium nucleatum subsp. vincentii strain NCTC11326155615.7wgspatric155615
66792Fusobacterium nucleatum vincentii ATCC 511902519899747draftimg1196653
66792Fusobacterium nucleatum vincentii NCTC 113262856191474draftimg851
67770Fusobacterium vincentii ATCC 51190GCA_000279975contigncbi1196653
67770Fusobacterium vincentii NCTC11326GCA_900450795contigncbi155615

GC content

  • @ref: 8138
  • GC-content: 26

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno75no
motileno92.693no
gram-positiveno94.179yes
anaerobicyes99.998yes
aerobicno98.808no
halophileno70.143no
spore-formingno91.433yes
glucose-utilyes78.697no
flagellatedno95.263no
thermophileno97.626yes
glucose-fermentyes57.145no

External links

@ref: 8138

culture collection no.: DSM 19508, ATCC 51190, CCUG 32880, CIP 104878, JCM 11024, NCTC 11326

straininfo link

  • @ref: 75242
  • straininfo: 46141

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8138Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19508)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19508
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
41355Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16835
51233Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 32880)https://www.ccug.se/strain?id=32880
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68367Automatically annotated from API 20A
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
75242Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID46141.1StrainInfo: A central database for resolving microbial strain identifiers
121368Curators of the CIPCollection of Institut Pasteur (CIP 104878)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104878