Strain identifier

BacDive ID: 14674

Type strain: Yes

Species: Staphylococcus rostri

Strain history: <- V. Perreten, Univ. Berne, Switzerland <- A. Riesen {2008}

NCBI tax ID(s): 522262 (species)

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General

@ref: 16068

BacDive-ID: 14674

DSM-Number: 21968

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, coccus-shaped

description: Staphylococcus rostri DSM 21968 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from nasal cavity of a healthy pig.

NCBI tax id

  • NCBI tax id: 522262
  • Matching level: species

strain history

  • @ref: 16068
  • history: <- V. Perreten, Univ. Berne, Switzerland <- A. Riesen {2008}

doi: 10.13145/bacdive14674.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Staphylococcaceae
  • genus: Staphylococcus
  • species: Staphylococcus rostri
  • full scientific name: Staphylococcus rostri Riesen and Perreten 2010

@ref: 16068

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Staphylococcus

species: Staphylococcus rostri

full scientific name: Staphylococcus rostri Riesen and Perreten 2010

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
29405positive0.5-1.1 µmcoccus-shapedno
69480positive100

pigmentation

  • @ref: 29405
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16068COLUMBIA 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
16068TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16068positivegrowth37mesophilic
29405positivegrowth37-43
29405positiveoptimum37mesophilic
61265positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29405facultative anaerobe
61265aerobe

spore formation

@refspore formationconfidence
69481no92
69480no99.776

halophily

@refsaltgrowthtested relationconcentration
29405NaClpositivegrowth09-12 %
29405NaClpositiveoptimum09-12 %

observation

  • @ref: 29405
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2940528757fructose+carbon source
2940517234glucose+carbon source
2940517992sucrose+carbon source
2940517632nitrate+reduction
6837516199urea-hydrolysis
6837529016arginine+hydrolysis
6837518257ornithine-degradation
683754853esculin+hydrolysis
6837517634D-glucose+fermentation
6837515824D-fructose+fermentation
6837516024D-mannose-fermentation
6837517306maltose-fermentation
6837517716lactose+fermentation
6837527082trehalose+fermentation
6837516899D-mannitol-fermentation
6837516634raffinose-fermentation
6837516988D-ribose-fermentation
6837517057cellobiose-fermentation
6837517632nitrate+reduction
6837517992sucrose+fermentation
6837559640N-acetylglucosamine+fermentation
6837532528turanose-fermentation
6837522599arabinose-fermentation

antibiotic resistance

  • @ref: 68375
  • ChEBI: 28368
  • metabolite: novobiocin
  • is antibiotic: yes
  • is sensitive: yes
  • sensitivity conc.: 1.8 µg

metabolite production

  • @ref: 68375
  • Chebi-ID: 15688
  • metabolite: acetoin
  • production: yes

metabolite tests

  • @ref: 68375
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: +

enzymes

@refvalueactivityec
29405alkaline phosphatase+3.1.3.1
29405catalase+1.11.1.6
68375beta-glucuronidase-3.2.1.31
68375pyrrolidonyl arylamidase+3.4.19.3
68375alkaline phosphatase+3.1.3.1
68375L-arginine arylamidase-
68375beta-galactosidase-3.2.1.23
68375beta-glucosidase+3.2.1.21
68375ornithine decarboxylase-4.1.1.17
68375arginine dihydrolase+3.5.3.6
68375urease-3.5.1.5

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
16068-+-+++--++----++--++-++---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
16068nasal cavity of a healthy pigBerneSwitzerlandCHEEurope
61265Pig,nose,healthy animal (Edelschwein)BernSwitzerlandCHEEurope2008-01-16

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Suidae (Pig,Swine)
#Host Body-Site#Organ#Nose

Safety information

risk assessment

  • @ref: 16068
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16068
  • description: Staphylococcus rostri partial 16S rRNA gene, type strain ARI 262T
  • accession: FM242137
  • length: 1413
  • database: ena
  • NCBI tax ID: 522262

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Staphylococcus rostri DSM 21968GCA_002902145scaffoldncbi522262
66792Staphylococcus rostri strain DSM 21968522262.5wgspatric522262
66792Staphylococcus rostri DSM 219682917432201draftimg522262

GC content

@refGC-contentmethod
1606838.8high performance liquid chromatography (HPLC)
2940538.8

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno92no
flagellatedno93.749yes
gram-positiveyes93.492yes
anaerobicno98.787yes
halophileyes94.281yes
spore-formingno88.022no
glucose-utilyes87.092yes
aerobicyes91.187no
thermophileno99.529yes
motileno91.89no
glucose-fermentyes81.268yes

External links

@ref: 16068

culture collection no.: DSM 21968, CCUG 57266, ARI 262

straininfo link

  • @ref: 83800
  • straininfo: 370643

literature

  • topic: Phylogeny
  • Pubmed-ID: 19819995
  • title: Staphylococcus rostri sp. nov., a haemolytic bacterium isolated from the noses of healthy pigs.
  • authors: Riesen A, Perreten V
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.012443-0
  • year: 2009
  • mesh: Animals, Bacterial Proteins/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Hemolysin Proteins/metabolism, Hemolysis, Molecular Sequence Data, Nose/*microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Staphylococcus/*classification/genetics/*isolation & purification/metabolism, Sus scrofa/*microbiology, Switzerland
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16068Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21968)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21968
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
29405Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2581228776041
61265Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 57266)https://www.ccug.se/strain?id=57266
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)
68375Automatically annotated from API ID32STA
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
83800Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID370643.1StrainInfo: A central database for resolving microbial strain identifiers