Strain identifier

BacDive ID: 169301

Type strain: Yes

Species: Staphylococcus roterodami

Strain Designation: EMCR19

Strain history: <- C.H.W. Klaassen, Univ. Rotterdam, Erasmus Med. Center; EMCR19

NCBI tax ID(s): 29387 (species)

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General

@ref: 68554

BacDive-ID: 169301

DSM-Number: 111914

keywords: genome sequence, Bacteria, mesophilic

description: Staphylococcus roterodami EMCR19 is a mesophilic bacterium that was isolated from swab from an infected wound on a foot .

NCBI tax id

  • NCBI tax id: 29387
  • Matching level: species

strain history

  • @ref: 68554
  • history: <- C.H.W. Klaassen, Univ. Rotterdam, Erasmus Med. Center; EMCR19

doi: 10.13145/bacdive169301.20241212.9.2

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 roterodami
  • full scientific name: Staphylococcus roterodami Schutte et al. 2021

@ref: 68554

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Caryophanales

family: Staphylococcaceae

genus: Staphylococcus

species: Staphylococcus sp.

full scientific name: Staphylococcus sp.

strain designation: EMCR19

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlink
68554TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium92.pdf
68554COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium693.pdf

culture temp

  • @ref: 68554
  • growth: positive
  • type: growth
  • temperature: 37

Physiology and metabolism

metabolite utilization

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

antibiotic resistance

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

enzymes

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

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
68554++--+++++++---++--++/-++++--
68554++--+++++++---+---++/-++++--

Isolation, sampling and environmental information

isolation

  • @ref: 68554
  • sample type: swab from an infected wound on a foot (used with sterile swab)
  • geographic location: Steenbergen, Province of Noord-Brabant in the Netherlands
  • country: Netherlands
  • origin.country: NLD
  • continent: Europe
  • latitude: 51.5862
  • longitude: 4.3156

Sequence information

Genome sequences

  • @ref: 66792
  • description: Staphylococcus sp. EMCR19
  • accession: 2699836.3
  • assembly level: wgs
  • database: patric
  • NCBI tax ID: 2699836

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes86.544no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no98.888no
69480spore-formingspore-formingAbility to form endo- or exosporesno72.587no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no50.691no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno93.24yes
69480flagellatedmotile2+Ability to perform flagellated movementno80.887no

External links

@ref: 68554

culture collection no.: DSM 111914, JCM 34415

straininfo link

  • @ref: 115538
  • straininfo: 406732

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68375Automatically annotated from API ID32STA
68554Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-111914Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 111914)
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
115538Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID406732.1