Strain identifier

BacDive ID: 12511

Type strain: Yes

Species: Porphyromonas uenonis

Strain history: CCUG 48615 <-- S. M. Finegold WAL 9902.

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 16823

BacDive-ID: 12511

DSM-Number: 23387

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

description: Porphyromonas uenonis DSM 23387 is an anaerobe, mesophilic bacterium that was isolated from human sacral decubitus ulcer.

NCBI tax id

NCBI tax idMatching level
281920species
1122976strain

strain history

@refhistory
16823<- CCUG <- S. M. Finegold, Dept. Veteran Affairs Medical Center, Los Angeles, USA <- Wadsworth Anaerobe Lab., Los Angeles, CA, USA
67770CCUG 48615 <-- S. M. Finegold WAL 9902.

doi: 10.13145/bacdive12511.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Porphyromonadaceae
  • genus: Porphyromonas
  • species: Porphyromonas uenonis
  • full scientific name: Porphyromonas uenonis Finegold et al. 2005

@ref: 16823

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Porphyromonadaceae

genus: Porphyromonas

species: Porphyromonas uenonis

full scientific name: Porphyromonas uenonis Finegold et al. 2005

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no90.086
6948099.992negative

colony morphology

  • @ref: 58261
  • incubation period: 2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16823COLUMBIA 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
16823CHOPPED MEAT MEDIUM (DSMZ Medium 78)yeshttps://mediadive.dsmz.de/medium/78Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78; with strain-specific modifications) Composition: Ground beef 500.0 g/l Bovine serum 50.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water

culture temp

@refgrowthtypetemperaturerange
16823positivegrowth37mesophilic
58261positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
16823anaerobe
58261anaerobe
69480anaerobe99.537

spore formation

@refspore formationconfidence
69481no100
69480no99.999

metabolite utilization

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

metabolite production

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

metabolite tests

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

enzymes

@refvalueactivityec
16823catalase-1.11.1.6
16823cytochrome-c oxidase-1.9.3.1
68380serine arylamidase-
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase+3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase+3.4.11.1
68380proline-arylamidase-3.4.11.5
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

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
16823---------------++--+----+--+-
16823---------------+++/--+-+/---+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
16823human sacral decubitus ulcerLos Angeles, CAUSAUSANorth America
58261Human sacral decubitus ulcer1991
67770Human sacral decubitus ulcer

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_3315.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_391;96_1725;97_2066;98_2541;99_3315&stattab=map
  • Last taxonomy: Porphyromonas uenonis
  • 16S sequence: AB547668
  • Sequence Identity:
  • Total samples: 6885
  • soil counts: 65
  • aquatic counts: 50
  • animal counts: 6767
  • plant counts: 3

Safety information

risk assessment

  • @ref: 16823
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Porphyromonas uenonis gene for 16S ribosomal RNA, partial sequence, strain: JCM 13868AB5476681490ena281920
16823Porphyromonas uenonis 16S ribosomal RNA gene, partial sequenceAY5705141457ena281920

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Porphyromonas uenonis DSM 233871122976.3wgspatric1122976
66792Porphyromonas uenonis JCM 138681236493.3wgspatric1122976
66792Porphyromonas uenonis JCM 138682585427891draftimg1122976
66792Porphyromonas uenonis DSM 233872528311143draftimg1122976
67770Porphyromonas uenonis DSM 23387 = JCM 13868GCA_000482365scaffoldncbi1122976
67770Porphyromonas uenonis DSM 23387 = JCM 13868GCA_000613705contigncbi1122976

GC content

@refGC-contentmethod
1682352.5
6777052.5high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno90.386no
flagellatedno97.514no
gram-positiveno97.333no
anaerobicyes99.3yes
aerobicno97.447yes
halophileno81.625no
spore-formingno96.707no
thermophileno95.755no
glucose-utilyes79.884no
glucose-fermentyes51.654no

External links

@ref: 16823

culture collection no.: DSM 23387, ATCC BAA 906, CCUG 48615, JCM 13868, WAL 9902

straininfo link

  • @ref: 81730
  • straininfo: 133438

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16823Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23387)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23387
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
58261Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48615)https://www.ccug.se/strain?id=48615
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/
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
81730Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID133438.1StrainInfo: A central database for resolving microbial strain identifiers