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Strain identifier

BacDive ID: 17165

Type strain: Yes

Species: Selenomonas noxia

Strain history: ATCC 43541 <-- L. V. H. Moore VPI D9B-5.

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

@ref: 8189

BacDive-ID: 17165

DSM-Number: 19578

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

description: Selenomonas noxia DSM 19578 is an anaerobe, mesophilic bacterium that was isolated from human gingival crevice.

NCBI tax id

NCBI tax idMatching level
135083species
585503strain

strain history

doi: 10.13145/bacdive17165.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Negativicutes
  • order: Selenomonadales
  • family: Selenomonadaceae
  • genus: Selenomonas
  • species: Selenomonas noxia
  • full scientific name: Selenomonas noxia Moore et al. 1987

@ref: 8189

domain: Bacteria

phylum: Firmicutes

class: Negativicutes

order: Selenomonadales

family: Selenomonadaceae

genus: Selenomonas

species: Selenomonas noxia

full scientific name: Selenomonas noxia Moore et al. 1987

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 98.795

colony morphology

  • @ref: 60046
  • incubation period: 2-3 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8189COLUMBIA 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
8189CHOPPED MEAT MEDIUM (DSMZ Medium 78)yeshttps://mediadive.dsmz.de/medium/78Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 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 (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water

culture temp

@refgrowthtypetemperaturerange
8189positivegrowth37mesophilic
60046positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8189anaerobe
60046anaerobe
69480anaerobe99.57

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 97.396

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 98.259

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

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
8189-----------------------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
8189human gingival creviceUSAUSANorth America
60046Human gingival crevice,severe periodontitis
67770Gingival crevice of an affected site in a person with rapidly progressive periodontitis

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Oral cavity and airways#Gingiva
#Host Body-Site#Oral cavity and airways#Tooth

taxonmaps

  • @ref: 69479
  • File name: preview.99_10812.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_55;96_1405;97_1676;98_2041;99_10812&stattab=map
  • Last taxonomy: Selenomonas noxia subclade
  • 16S sequence: LC037221
  • Sequence Identity:
  • Total samples: 2843
  • soil counts: 23
  • aquatic counts: 60
  • animal counts: 2746
  • plant counts: 14

Safety information

risk assessment

  • @ref: 8189
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
8189Selenomonas noxia 16S ribosomal RNA gene, partial sequenceAF2877991491ena135083
67770Selenomonas noxia gene for 16S ribosomal RNA, partial sequence, strain: JCM 8546LC0372211505ena135083

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Selenomonas noxia ATCC 43541585503.3wgspatric585503
66792Selenomonas noxia ATCC 43541645951808draftimg585503
67770Selenomonas noxia ATCC 43541 ATCC 43541GCA_000160555scaffoldncbi585503

GC content

@refGC-contentmethod
818957
6777057thermal denaturation, midpoint method (Tm)

External links

@ref: 8189

culture collection no.: DSM 19578, ATCC 43541, JCM 8546, CCUG 53876, BCRC 14410, VPI D9B-5

straininfo link

@refpassport
20218http://www.straininfo.net/strains/724549
20218http://www.straininfo.net/strains/112777
20218http://www.straininfo.net/strains/184208

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8189Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19578)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19578
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
60046Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 53876)https://www.ccug.se/strain?id=53876
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)