Strain identifier

BacDive ID: 5769

Type strain: Yes

Species: Fusobacterium gonidiaformans

Strain Designation: 3554A

Strain history: <- CCUG <- T. Hofstad <- ? <- A. Prevot; 3554A

NCBI tax ID(s): 469615 (strain), 849 (species)

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General

@ref: 8329

BacDive-ID: 5769

DSM-Number: 19810

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

description: Fusobacterium gonidiaformans 3554A is an anaerobe, mesophilic bacterium of the family Fusobacteriaceae.

NCBI tax id

NCBI tax idMatching level
849species
469615strain

strain history

  • @ref: 8329
  • history: <- CCUG <- T. Hofstad <- ? <- A. Prevot; 3554A

doi: 10.13145/bacdive5769.20250331.9.3

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 gonidiaformans
  • full scientific name: Fusobacterium gonidiaformans (Tunnicliff and Jackson 1925) Moore and Holdeman 1970 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Bacillus gonidiaformans
    20215Fusobacterium equinum

@ref: 8329

domain: Bacteria

phylum: Fusobacteria

class: Fusobacteriia

order: Fusobacteriales

family: Fusobacteriaceae

genus: Fusobacterium

species: Fusobacterium gonidiaformans

full scientific name: Fusobacterium gonidiaformans (Tunnicliff and Jackson 1925) Moore and Holdeman 1970

strain designation: 3554A

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8329PYG MEDIUM (MODIFIED) (DSMZ Medium 104)yeshttps://mediadive.dsmz.de/medium/104Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
8329COLUMBIA 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: 8329
  • growth: positive
  • type: growth
  • temperature: 37

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8329anaerobe
125438anaerobe94.953
125439anaerobe99.9

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838027897tryptophan+energy source
6838016024D-mannose-fermentation
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838017632nitrate-reduction
6838029985L-glutamate-degradation
6838016634raffinose-fermentation

metabolite production

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: +

enzymes

@refvalueactivityec
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380phenylalanine arylamidase-
68380proline-arylamidase-3.4.11.5
68380L-arginine arylamidase-
68380alkaline phosphatase-3.1.3.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380beta-glucosidase-3.2.1.21
68380alpha-glucosidase-3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase-3.2.1.23
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380leucine arylamidase-3.4.11.1
68380leucyl glycin arylamidase-3.4.11.1
68380tryptophan deaminase+4.1.99.1
68380N-acetyl-beta-glucosaminidase-3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
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
8329---------------+-------------

Safety information

risk assessment

  • @ref: 8329
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Fusobacterium gonidiaformans strain ATCC 25563 16S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, complete sequence; and 23S ribosomal RNA gene, partial sequenceAF342846742nuccore469615
20218Fusobacterium gonidoformans small subunit rRNA sequenceM586791457nuccore849
8329Fusobacterium gonidiaformans rRNA small subunitX554101333nuccore469615

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Fusobacterium gonidiaformans ATCC 25563GCA_003019695completencbi469615
66792Fusobacterium gonidiaformans ATCC 25563GCA_000158835scaffoldncbi469615
66792Fusobacterium gonidiaformans ATCC 25563469615.12completepatric469615
66792Fusobacterium gonidiaformans ATCC 25563469615.3wgspatric469615
66792Fusobacterium gonidiaformans ATCC 25563645951804draftimg469615
66792Fusobacterium gonidiaformans ATCC 255632806310888completeimg469615

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno89.877no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)yes94.953yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no98.237yes
125438spore-formingspore-formingAbility to form endo- or exosporesno82.353no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno92.209yes
125438motile2+flagellatedAbility to perform flagellated movementno87.5no
125439BacteriaNetspore_formationAbility to form endo- or exosporesyes72.4
125439BacteriaNetmotilityAbility to perform movementyes76.6
125439BacteriaNetgram_stainReaction to gram-stainingvariable68.7
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthanaerobe99.9

External links

@ref: 8329

culture collection no.: DSM 19810, ATCC 25563, CCUG 16790, VPI 0482A

straininfo link

  • @ref: 75248
  • straininfo: 46647

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8329Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19810)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19810
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
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)
68380Automatically annotated from API rID32A
75248Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID46647.1StrainInfo: A central database for resolving microbial strain identifiers
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1