Strain identifier

BacDive ID: 12532

Type strain: Yes

Species: Hoylesella oralis

Strain history: CCUG 15408 <-- ATCC 33269 <-- L. V. Holdeman VPI D27B-24.

NCBI tax ID(s): 873533 (strain), 28134 (species)

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General

@ref: 8780

BacDive-ID: 12532

DSM-Number: 20702

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

description: Hoylesella oralis CCUG 15408 is an anaerobe, mesophilic human pathogen that was isolated from human peridontal pocket.

NCBI tax id

NCBI tax idMatching level
873533strain
28134species

strain history

@refhistory
8780<- NCTC <- L.V. Holdeman (VPI D27B-24)
67770CCUG 15408 <-- ATCC 33269 <-- L. V. Holdeman VPI D27B-24.

doi: 10.13145/bacdive12532.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Prevotellaceae
  • genus: Hoylesella
  • species: Hoylesella oralis
  • full scientific name: Hoylesella oralis (Loesche et al. 1964) Hitch et al. 2023

  • synonyms

    @refsynonym
    20215Bacteroides oralis
    20215Prevotella oralis

@ref: 8780

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Prevotellaceae

genus: Prevotella

species: Prevotella oralis

full scientific name: Prevotella oralis (Loesche et al. 1964) Shah and Collins 1990 emend. Hahnke et al. 2016

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no90.32
6948099.999negative

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8780CHOPPED 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
8780COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium693.pdf

culture temp

@refgrowthtypetemperaturerange
8780positivegrowth37mesophilic
46247positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8780anaerobe
46247anaerobe
69480anaerobe100

spore formation

@refspore formationconfidence
69481no100
69480no99.999

metabolite utilization

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

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-
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
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

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
8780--++-++/---+------+--+----+--+/--
8780--++-++--+++-+--+--+----+----

Isolation, sampling and environmental information

isolation

@refsample type
8780human peridontal pocket
46247Human periodontal pocket
67770Human oral cavity

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Oral cavity and airways#Periodontal pocket

taxonmaps

  • @ref: 69479
  • File name: preview.99_228.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16442;96_162;97_174;98_195;99_228&stattab=map
  • Last taxonomy: Prevotella oralis subclade
  • 16S sequence: AY323522
  • Sequence Identity:
  • Total samples: 23165
  • soil counts: 214
  • aquatic counts: 256
  • animal counts: 22578
  • plant counts: 117

Safety information

risk assessment

  • @ref: 8780
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Prevotella oralis 16S ribosomal RNA gene, partial sequenceAY3235221510ena873533
20218Prevotella oralis gene for 16S ribosomal RNA, partial sequence, strain: JCM 12251AB5476981496ena873533
8780Prevotella oralis ATCC 33269) 16S ribosomal RNA gene, complete sequenceL164801481ena28134

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Prevotella oralis ATCC 33269873533.3wgspatric873533
66792Prevotella oralis strain DSM 2070228134.3wgspatric28134
66792Prevotella oralis ATCC 33269649989988draftimg873533
66792Prevotella oralis DSM 207022695421016draftimg28134
67770Hoylesella oralis ATCC 33269GCA_000185145scaffoldncbi873533
67770Hoylesella oralis DSM 20702GCA_900129435contigncbi28134

GC content

@refGC-contentmethod
878043.1
878044.5sequence analysis
6777045thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno93.425no
flagellatedno97.33no
gram-positiveno97no
anaerobicyes98.193yes
halophileno82.79no
spore-formingno96.302no
thermophileno95.329no
glucose-utilyes85.147no
aerobicno98.354yes
glucose-fermentyes67.125no

External links

@ref: 8780

culture collection no.: CCUG 15408, JCM 12251, DSM 20702, ATCC 33269, NCTC 11459, VPI D27B-24

literature

  • topic: Pathogenicity
  • Pubmed-ID: 2875705
  • title: An electron microscope survey of the surface structures and hydrophobicity of oral and non-oral species of the bacterial genus Bacteroides.
  • authors: Handley PS, Tipler LS
  • journal: Arch Oral Biol
  • DOI: 10.1016/0003-9969(86)90047-6
  • year: 1986
  • mesh: Bacteroides/classification/*ultrastructure, Fimbriae, Bacterial/ultrastructure, Humans, Microscopy, Electron, Surface Properties
  • topic2: Phylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8780Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20702)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20702
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
46247Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 15408)https://www.ccug.se/strain?id=15408
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)
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