Strain identifier

BacDive ID: 17164

Type strain: Yes

Species: Selenomonas infelix

Strain history: ATCC 43532 <-- L. V. H. Moore VPI D75B-30.

NCBI tax ID(s): 679201 (strain), 135082 (species)

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General

@ref: 8243

BacDive-ID: 17164

DSM-Number: 19666

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative

description: Selenomonas infelix DSM 19666 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from human subgingival region.

NCBI tax id

NCBI tax idMatching level
679201strain
135082species

strain history

@refhistory
8243<- JCM <- ATCC <- L. V. H. Moore; VPI D75B-30 <- W. E. C. Moore
67770ATCC 43532 <-- L. V. H. Moore VPI D75B-30.

doi: 10.13145/bacdive17164.20230509.8.1

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 infelix
  • full scientific name: Selenomonas infelix Moore et al. 1987

@ref: 8243

domain: Bacteria

phylum: Firmicutes

class: Negativicutes

order: Selenomonadales

family: Selenomonadaceae

genus: Selenomonas

species: Selenomonas infelix

full scientific name: Selenomonas infelix Moore et al. 1987

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.843

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8243PYG MEDIUM (MODIFIED) (DSMZ Medium 104)yeshttps://mediadive.dsmz.de/medium/104Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
8243COLUMBIA 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
8243positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8243anaerobe
69480anaerobe100

spore formation

@refspore formationconfidence
69481no99
69480no99.984

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: 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
8243-----------------------------

Isolation, sampling and environmental information

isolation

@refsample type
8243human subgingival region
67770Gingival crevice of a person with moderate periodontitis

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_6402.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_55;96_801;97_935;98_2042;99_6402&stattab=map
  • Last taxonomy: Selenomonas infelix
  • 16S sequence: AF287802
  • Sequence Identity:
  • Total samples: 1862
  • soil counts: 8
  • aquatic counts: 43
  • animal counts: 1807
  • plant counts: 4

Safety information

risk assessment

  • @ref: 8243
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
8243Selenomonas infelix 16S ribosomal RNA gene, partial sequenceAF2878021524ena679201
67770Selenomonas infelix gene for 16S ribosomal RNA, partial sequence, strain: JCM 8545LC0372201282ena135082

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Selenomonas infelix ATCC 43532679201.3wgspatric679201
66792Selenomonas infelix ATCC 435322513237316draftimg679201
67770Selenomonas infelix ATCC 43532GCA_000234095scaffoldncbi679201

GC content

@refGC-contentmethod
824358
6777058thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
gram-positiveno97.776no
anaerobicyes99.372yes
halophileno92.256no
spore-formingno87.952no
glucose-utilyes70.136no
thermophileno86.758yes
flagellatedno76.259no
motileyes80.389no
aerobicno98.579yes
glucose-fermentyes53.774no

External links

@ref: 8243

culture collection no.: DSM 19666, ATCC 43532, JCM 8545, VPI D75B-30, BCRC 14422

straininfo link

  • @ref: 86163
  • straininfo: 46054

literature

  • topic: Phylogeny
  • Pubmed-ID: 34612809
  • title: Isolation and description of Selenomonas timonae sp. nov., a novel Selenomonas species detected in a gingivitis patient.
  • authors: Antezack A, Boxberger M, Ben Khedher M, La Scola B, Monnet-Corti V
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.005040
  • year: 2021
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, France, *Gingivitis/microbiology, Humans, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Selenomonas/classification/isolation & purification, Sequence Analysis, DNA
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitle
8243Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19666)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19666
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
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
86163Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID46054.1StrainInfo: A central database for resolving microbial strain identifiers