Strain identifier

BacDive ID: 5773

Type strain: Yes

Species: Fusobacterium ulcerans

Strain history: <- CCUG; CCUG 50053 <- NCTC; NCTC 12111 <- B. Adriaans;

NCBI tax ID(s): 469617 (strain), 861 (species)

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General

@ref: 8286

BacDive-ID: 5773

DSM-Number: 19847

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

description: Fusobacterium ulcerans DSM 19847 is an anaerobe bacterium that was isolated from Human skin ulcer.

NCBI tax id

NCBI tax idMatching level
469617strain
861species

strain history

  • @ref: 8286
  • history: <- CCUG; CCUG 50053 <- NCTC; NCTC 12111 <- B. Adriaans;

doi: 10.13145/bacdive5773.20240916.9.1

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 ulcerans
  • full scientific name: Fusobacterium ulcerans Adriaans and Shah 1988

@ref: 8286

domain: Bacteria

phylum: Fusobacteria

class: Fusobacteriia

order: Fusobacteriales

family: Fusobacteriaceae

genus: Fusobacterium

species: Fusobacterium ulcerans

full scientific name: Fusobacterium ulcerans Adriaans and Shah 1988

type strain: yes

Morphology

colony morphology

@refincubation period
82863-7 days
587303 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8286COLUMBIA 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
8286CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)yeshttps://mediadive.dsmz.de/medium/110Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water

culture temp

@refgrowthtypetemperature
8286positivegrowth37
58730positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
8286anaerobe
58730anaerobe

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
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
6836717634D-glucose+builds acid from
6836716199urea-hydrolysis
6838016199urea-hydrolysis
6838016634raffinose-fermentation
6838029985L-glutamate-degradation

enzymes

@refvalueactivityec
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380tyrosine arylamidase-
68380leucine arylamidase-3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase-3.4.11.1
68380alkaline phosphatase-3.1.3.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
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-
68380alpha-galactosidase-3.2.1.22
68380urease-3.5.1.5
68367catalase-1.11.1.6
68367urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    58730C14:016.714
    58730C15:00.715
    58730C16:017.416
    58730C18:00.818
    58730C13:0 3OH/C15:1 i I/H2.214.469
    58730C13:0 ISO 2OH0.913.814
    58730C13:1 at 12-130.412.931
    58730C14:0 3OH/C16:1 ISO I6.515.485
    58730C16:0 aldehyde1.314.949
    58730C16:1 ω5c0.615.908
    58730C16:1 ω7c22.115.819
    58730C16:1 ω7c DMA2.816.288
    58730C16:1 ω9c5.515.774
    58730C16:1 ω9c DMA1.916.242
    58730C17:1 ISO I/C16:0 DMA7.416.481
    58730C17:1 ω8c0.316.792
    58730C18:1 ω7c /12t/9t1.617.824
    58730C18:1 ω9c417.769
    58730C18:2 ω6,9c/C18:0 ANTE5.717.724
    58730Unidentified0.413.942
    58730unknown 14.7761.114.776
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRECAT
8286--+--------+--+-----
8286--+--------+--+-----
8286--+--------+--+------
8286+-++/-------+-+-+-----

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
8286----------------------+------
8286-+-+/------++---++-++-----++--+
8286----------------------+------
8286----------------------+------
8286----------------------+------
8286----------+/----+-------+------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
8286Human skin ulcerGambiaGMBAfrica
58730Human skin ulcerGambiaGMBAfrica

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Organ#Skin, Nail, Hair

Safety information

risk assessment

  • @ref: 8286
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Fusobacterium ulcerans strain NCTC 12111 16S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, complete sequence; and 23S ribosomal RNA gene, partial sequenceAF342851779nuccore861
20218Fusobacterium ulcerans rRNA small subunitX554121333nuccore861
8286Fusobacterium ulcerans 16S rRNA gene, strain ATCC 12111AJ8670371462nuccore861
124043Fusobacterium ulcerans partial 16S rRNA gene, strain CCUG 50053LT5941011334nuccore861

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Fusobacterium ulcerans ATCC 49185GCA_003019675completencbi861
66792Fusobacterium ulcerans ATCC 49185 Fusobacterium ulcerans 81A6GCA_900683735completencbi469617
66792Fusobacterium ulcerans ATCC 49185GCA_000158315scaffoldncbi469617
66792Fusobacterium ulcerans ATCC 49185469617.3wgspatric469617
66792Fusobacterium ulcerans ATCC 49185 strain Fusobacterium ulcerans 81A6469617.11completepatric469617
66792Fusobacterium ulcerans strain ATCC 49185861.4completepatric861
66792Fusobacterium ulcerans ATCC 491852562617154draftimg469617
66792Fusobacterium ulcerans ATCC 491852841649680completeimg469617
66792Fusobacterium ulcerans ATCC 491852806310933completeimg469617

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesyes66no
69480gram-positivegram-positivePositive reaction to Gram-stainingno80.178no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)yes86.711yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no94.889yes
69480spore-formingspore-formingAbility to form endo- or exosporesno67.844no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno93.612yes
69480flagellatedmotile2+Ability to perform flagellated movementno73.268no

External links

@ref: 8286

culture collection no.: DSM 19847, ATCC 49185, CCUG 50053, NCTC 12111

straininfo link

  • @ref: 75252
  • straininfo: 42342

literature

  • topic: Pathogenicity
  • Pubmed-ID: 9573823
  • title: Helicobacter pylori adheres selectively to Fusobacterium spp.
  • authors: Andersen RN, Ganeshkumar N, Kolenbrander PE
  • journal: Oral Microbiol Immunol
  • DOI: 10.1111/j.1399-302x.1998.tb00751.x
  • year: 1998
  • mesh: *Bacterial Adhesion/drug effects, Culture Media, Depression, Chemical, Fusobacterium/drug effects/*physiology, Helicobacter pylori/drug effects/*physiology, Hot Temperature, Humans, Lactose/pharmacology, Mouth/microbiology, Species Specificity
  • topic2: Cultivation

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8286Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19847)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19847
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
58730Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 50053)https://www.ccug.se/strain?id=50053
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)
68367Automatically annotated from API 20A
68380Automatically annotated from API rID32A
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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
75252Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID42342.1StrainInfo: A central database for resolving microbial strain identifiers
124043Dr. Isabel Schober, Dr. Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy