Strain identifier

BacDive ID: 12567

Type strain: Yes

Species: Prevotella fusca

Strain Designation: W1435

Strain history: CCUG 57946 <-- J. Downes <-- W. Wade W1435.

NCBI tax ID(s): 1236517 (strain), 589436 (species)

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General

@ref: 16373

BacDive-ID: 12567

DSM-Number: 22504

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

description: Prevotella fusca W1435 is an anaerobe, mesophilic human pathogen that was isolated from human oral cavity; periodontic subgingival plaque.

NCBI tax id

NCBI tax idMatching level
589436species
1236517strain

strain history

@refhistory
16373<- J. Downes, King's College London, United Kingdom <- W. G. Wade; W1435
67770CCUG 57946 <-- J. Downes <-- W. Wade W1435.

doi: 10.13145/bacdive12567.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Prevotellaceae
  • genus: Prevotella
  • species: Prevotella fusca
  • full scientific name: Prevotella fusca Downes and Wade 2011

@ref: 16373

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Prevotellaceae

genus: Prevotella

species: Prevotella fusca

full scientific name: Prevotella fusca Downes and Wade 2011

strain designation: W1435

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no91.138
6948099.999negative

colony morphology

  • @ref: 61533
  • incubation period: 2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16373CHOPPED 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
16373COLUMBIA 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

@refgrowthtypetemperaturerange
16373positivegrowth37mesophilic
61533positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
16373anaerobe
61533anaerobe
69480anaerobe99.999

spore formation

@refspore formationconfidence
69481no100
69480no99.998

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836727082trehalose+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
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
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
6836735581indoleno
6838035581indoleno

metabolite tests

@refChebi-IDmetaboliteindole test
6838035581indole-
6836735581indole-

enzymes

@refvalueactivityec
68380serine arylamidase-
68380histidine 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
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
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
68367beta-glucosidase+3.2.1.21
68367gelatinase-
68367urease-3.5.1.5

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRE
16373--+++++-+/-+/--++++++++/-+

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
16373--+++++/---+++-+--++-+----+--+/--

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling date
16373human oral cavity; periodontic subgingival plaqueUnited KingdomGBREurope
61533Human oral cavity,periodontic subgingival plaqueUnited KingdomGBREurope2000
67770Human oral cavity

isolation source categories

Cat1Cat2Cat3
#Infection#Inflammation
#Host#Human
#Host Body-Site#Oral cavity and airways#Subgingival plaque

taxonmaps

  • @ref: 69479
  • File name: preview.99_6162.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_44;96_2934;97_3609;98_4569;99_6162&stattab=map
  • Last taxonomy: Prevotella fusca subclade
  • 16S sequence: FJ545433
  • Sequence Identity:
  • Total samples: 4089
  • soil counts: 103
  • aquatic counts: 33
  • animal counts: 3919
  • plant counts: 34

Safety information

risk assessment

  • @ref: 16373
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
16373Prevotella fusca JCM 17724 strain W1435 16S ribosomal RNA gene, partial sequenceFJ5454331453ena1236517
67770Prevotella fusca gene for 16S ribosomal RNA, partial sequence, strain: JCM 17724AB6832521492ena1236517

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Prevotella fusca JCM 17724 W1435GCA_001262015completencbi1236517
66792Prevotella fusca JCM 17724 W1435GCA_018128145completencbi1236517
66792Prevotella fusca JCM 17724GCA_000614245contigncbi1236517
66792Prevotella fusca JCM 177241236517.4wgspatric1236517
66792Prevotella fusca JCM 17724 strain W14351236517.6completepatric1236517
66792Prevotella fusca W14352684623158completeimg1236517
66792Prevotella fusca JCM 177242585427899draftimg1236517

GC content

  • @ref: 16373
  • GC-content: 43
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno90.886no
flagellatedno96.218no
gram-positiveno97.01no
anaerobicyes97.972yes
aerobicno97.999yes
halophileno81.075no
spore-formingno96.073no
thermophileno98.22yes
glucose-utilyes87.37no
glucose-fermentyes60.197no

External links

@ref: 16373

culture collection no.: DSM 22504, CCUG 57946, JCM 17724

straininfo link

  • @ref: 81781
  • straininfo: 400544

literature

  • topic: Phylogeny
  • Pubmed-ID: 20495041
  • title: Prevotella fusca sp. nov. and Prevotella scopos sp. nov., isolated from the human oral cavity.
  • authors: Downes J, Wade WG
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.023861-0
  • year: 2010
  • mesh: Anaerobiosis, Anti-Bacterial Agents/metabolism, Base Composition, Bile/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hemiterpenes, Humans, Lactic Acid/metabolism, Molecular Sequence Data, Mouth/*microbiology, Pentanoic Acids/metabolism, Phylogeny, Prevotella/*classification/genetics/*isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Succinic Acid/metabolism, Sucrose/metabolism
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitle
16373Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22504)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22504
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
61533Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 57946)https://www.ccug.se/strain?id=57946
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)
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
81781Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID400544.1StrainInfo: A central database for resolving microbial strain identifiers