Strain identifier

BacDive ID: 17166

Type strain: Yes

Species: Selenomonas bovis

Strain Designation: WG

Strain history: X. Dong strain WG.

NCBI tax ID(s): 1123250 (strain), 416586 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 17234

BacDive-ID: 17166

DSM-Number: 23594

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

description: Selenomonas bovis WG is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from yak rumen content.

NCBI tax id

NCBI tax idMatching level
416586species
1123250strain

strain history

@refhistory
17234<- JCM <- X. Dong; WG
67770X. Dong strain WG.

doi: 10.13145/bacdive17166.20230509.8.1

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 bovis
  • full scientific name: Selenomonas bovis Zhang and Dong 2009

@ref: 17234

domain: Bacteria

phylum: Firmicutes

class: Negativicutes

order: Selenomonadales

family: Selenomonadaceae

genus: Selenomonas

species: Selenomonas bovis

full scientific name: Selenomonas bovis Zhang and Dong 2009

strain designation: WG

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29160negative5 µm1 µmrod-shapedyes
68367rod-shaped
68367negative
69480yes91.58
69480negative99.79

colony morphology

  • @ref: 17234
  • type of hemolysis: alpha/beta
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17234PYG 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
17234CHOPPED 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
17234positivegrowth37mesophilic
29160positivegrowth27-46
29160positiveoptimum39mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepH
29160positivegrowth4.2-8.3
29160positiveoptimum7.1

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
17234anaerobe
29160anaerobe
69480anaerobe100

spore formation

@refspore formationconfidence
29160no
68367no
69481no95
69480no98.806

observation

  • @ref: 29160
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2916022599arabinose+carbon source
2916017057cellobiose+carbon source
291605291gelatin+carbon source
2916017234glucose+carbon source
2916017716lactose+carbon source
2916037684mannose+carbon source
2916028053melibiose+carbon source
2916016634raffinose+carbon source
2916017814salicin+carbon source
2916017992sucrose+carbon source
2916027082trehalose+carbon source
291604853esculin+hydrolysis
6836727082trehalose-builds acid from
6836762345L-rhamnose-builds acid from
6836730911sorbitol-builds acid from
6836716634raffinose-builds acid from
683676731melezitose-builds acid from
6836716024D-mannose-builds acid from
6836717057cellobiose-builds acid from
6836717754glycerol-builds acid from
683674853esculin-hydrolysis
683675291gelatin-hydrolysis
6836730849L-arabinose-builds acid from
6836765327D-xylose-builds acid from
6836717814salicin-builds acid from
6836717306maltose+builds acid from
6836717992sucrose+builds acid from
6836717716lactose-builds acid from
6836716899D-mannitol-builds acid from
6836717634D-glucose-builds acid from
6836716199urea-hydrolysis
6836727897tryptophan-energy source
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
2916016136hydrogen sulfideyes
6836735581indoleno
6838035581indoleno

metabolite tests

@refChebi-IDmetaboliteindole test
6838035581indole-
6836735581indole-

enzymes

@refvalueactivityec
17234catalase+1.11.1.6
17234cytochrome-c oxidase-1.9.3.1
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
68367catalase-1.11.1.6
68367beta-glucosidase-3.2.1.21
68367gelatinase-
68367urease-3.5.1.5

API 20A

@refINDUREGLUMANLACSACMALSALXYLARAGELESCGLYCELMNEMLZRAFSORRHATRECATSPORGRAMCOCC
17234-----++-----------------

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
17234--++-+-----------------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
17234yak rumen contentChinaCHNAsia
67770Yak rumen contents

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body-Site#Organ#Rumen

taxonmaps

  • @ref: 69479
  • File name: preview.99_13743.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_262;96_7064;97_8473;98_10406;99_13743&stattab=map
  • Last taxonomy: Selenomonas bovis subclade
  • 16S sequence: EF139191
  • Sequence Identity:
  • Total samples: 18497
  • soil counts: 461
  • aquatic counts: 1774
  • animal counts: 16062
  • plant counts: 200

Safety information

risk assessment

  • @ref: 17234
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17234
  • description: Selenomonas bovis strain WG 16S ribosomal RNA gene, partial sequence
  • accession: EF139191
  • length: 1525
  • database: ena
  • NCBI tax ID: 416586

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Selenomonas bovis DSM 235941123250.4wgspatric1123250
66792Selenomonas bovis DSM 235942518645620draftimg1123250
67770Selenomonas bovis DSM 23594GCA_000381005scaffoldncbi1123250

GC content

@refGC-contentmethod
1723463.9high performance liquid chromatography (HPLC)
2916063.9
6777063.9thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno95no
motileyes87.548yes
flagellatedno50no
gram-positiveno97.211yes
anaerobicyes99.999yes
aerobicno99.236yes
halophileno90.156no
spore-formingno86.853yes
thermophileno87.969yes
glucose-utilyes79.44no
glucose-fermentyes58.774no

External links

@ref: 17234

culture collection no.: DSM 23594, CGMCC 1.5073, JCM 15470, KCTC 15154

straininfo link

  • @ref: 86165
  • straininfo: 397952

literature

  • topic: Phylogeny
  • Pubmed-ID: 19605710
  • title: Selenomonas bovis sp. nov., isolated from yak rumen contents.
  • authors: Zhang K, Dong X
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.007641-0
  • year: 2009
  • mesh: Acetates/metabolism, Anaerobiosis, Animals, Bacterial Typing Techniques, Base Composition, Carbohydrate Metabolism, Carbon Dioxide/metabolism, Cattle/*microbiology, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Flagella, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, Phylogeny, Propionates/metabolism, RNA, Ribosomal, 16S/genetics, Rumen/*microbiology, Selenomonas/*classification/genetics/*isolation & purification/physiology, Sequence Analysis, DNA, Spores, Bacterial/cytology, Temperature
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17234Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23594)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23594
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
29160Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2558428776041
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/
68367Automatically annotated from API 20A
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
86165Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID397952.1StrainInfo: A central database for resolving microbial strain identifiers