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Strain identifier

BacDive ID: 139763

Type strain: Yes

Species: Prevotella dentalis

Strain Designation: ES2772

Strain history: CCUG 48288 <-- DSM 3688 <-- M. Haapasalo ES2772.

NCBI tax ID(s): 908937 (strain), 52227 (species)

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General

@ref: 1456

BacDive-ID: 139763

DSM-Number: 3688

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

description: Prevotella dentalis ES2772 is an anaerobe, mesophilic human pathogen that was isolated from human dental root canal.

NCBI tax id

NCBI tax idMatching level
52227species
908937strain

strain history

doi: 10.13145/bacdive139763.20221219.7.1

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 dentalis
  • full scientific name: Prevotella dentalis (Haapasalo et al. 1986) Willems and Collins 1995

  • synonyms

    • @ref: 20215
    • synonym: Mitsuokella dentalis

@ref: 1456

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Prevotellaceae

genus: Prevotella

species: Prevotella dentalis

full scientific name: Prevotella dentalis (Haapasalo et al. 1986) Willems and Collins 1995 emend. Hahnke et al. 2016

strain designation: ES2772

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 98.677

colony morphology

  • @ref: 58066
  • incubation period: 3 days

Culture and growth conditions

culture medium

  • @ref: 1456
  • name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/693
  • composition: Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

culture temp

@refgrowthtypetemperaturerange
1456positivegrowth37mesophilic
58066positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
58066anaerobe
69480anaerobe99.158

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.092

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 99.019

metabolite utilization

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

metabolite production

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

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

enzymes

@refvalueactivityec
68380serine arylamidase-
68380glutamyl-glutamate 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
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

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    58066C14:03.114
    58066C16:01316
    58066C18:02.118
    58066C13:1 at 12-134.812.931
    58066C14:0 ISO19.913.618
    58066C15:0 ANTEISO6.814.711
    58066C16:0 3OH12.117.52
    58066C16:0 iso11.815.626
    58066C16:0 iso 3OH3.417.145
    58066C17:1 ISO I/C16:0 DMA2.416.481
    58066C18:1 ω9c6.917.769
    58066C18:2 ω6,9c/C18:0 ANTE8.917.724
    58066Unidentified1.912.549
    58066Unidentified1.514.575
    58066Unidentified1.719.174
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
1456---+-+-+-+------+--+----+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
1456human dental root canalHelsinkiFinlandFINEurope
58066Human dental root canal
67770Dental root canals

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Oral cavity and airways#Root (Tooth)
#Infection#Patient

taxonmaps

  • @ref: 69479
  • File name: preview.99_223.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16035;96_159;97_170;98_190;99_223&stattab=map
  • Last taxonomy: Prevotella
  • 16S sequence: NR_102481
  • Sequence Identity:
  • Total samples: 18324
  • soil counts: 230
  • aquatic counts: 247
  • animal counts: 17748
  • plant counts: 99

Safety information

risk assessment

  • @ref: 1456
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
1456P.dentalis 16S rRNA geneX818761482ena908937
1456Prevotella dentalis DSM 3688 16S ribosomal RNA, partial sequenceNR_1024811533nuccore908937
67770Prevotella dentalis gene for 16S ribosomal RNA, partial sequence, strain: JCM 13448AB5476781483ena908937

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Prevotella dentalis DSM 3688 DSM 3688GCA_000242335completencbi908937
66792Prevotella dentalis DSM 3688908937.14plasmidpatric908937
66792Prevotella dentalis DSM 3688908937.13plasmidpatric908937
66792Prevotella dentalis DSM 3688908937.9completepatric908937
66792Prevotella dentalis DSM 3688908937.4wgspatric908937
66792Prevotella dentalis ES 2772, DSM 36882509276066completeimg908937
67770Prevotella dentalis DSM 3688 ATCC 49559GCA_000220215scaffoldncbi908937
67770Prevotella dentalis DSM 3688 chromosome 1, complete sequenceCP003368ena908937
67770Prevotella dentalis DSM 3688 chromosome 2, complete sequenceCP003369ena908937
66792Klebsiella pneumoniae AUH-KIMP177GCA_002866675contigpatric573
66792Acinetobacter baumannii MRSN1311GCA_006494165contigpatric470
66792Pseudomonas aeruginosa 326GCA_900146555contigpatric287
66792uncultured Clostridia bacterium SRR11489777_bin.96_metaWRAP_v1.3_MAGGCA_945931585contigpatric244328

GC content

@refGC-contentmethod
145658.6
145655.9sequence analysis
6777056-60thermal denaturation, midpoint method (Tm)

External links

@ref: 1456

culture collection no.: DSM 3688, ATCC 49559, CCUG 48288, NCTC 12043, JCM 13448

literature

  • topic: Enzymology
  • Pubmed-ID: 1398963
  • title: Identification of proteases from periodontopathogenic bacteria as activators of latent human neutrophil and fibroblast-type interstitial collagenases.
  • authors: Sorsa T, Ingman T, Suomalainen K, Haapasalo M, Konttinen YT, Lindy O, Saari H, Uitto VJ
  • journal: Infect Immun
  • DOI: 10.1128/iai.60.11.4491-4495.1992
  • year: 1992
  • mesh: Collagenases/*metabolism, Dental Plaque/enzymology/*microbiology, Endopeptidases/*metabolism, Enzyme Activation, Fibroblasts/enzymology, Glycoproteins/metabolism, Humans, In Vitro Techniques, Matrix Metalloproteinase 1, Matrix Metalloproteinase 8, Neutrophils/enzymology, Periodontitis/enzymology/*microbiology, Tissue Inhibitor of Metalloproteinases, Treponema/enzymology
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1456Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3688)https://www.dsmz.de/collection/catalogue/details/culture/DSM-3688
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
58066Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48288)https://www.ccug.se/strain?id=48288
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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)