Strain identifier

BacDive ID: 132215

Type strain: Yes

Species: Staphylococcus pragensis

Strain Designation: NRL/St 12/356, P5397

Strain history: <- CCM <- P. Petrás; NRL/St 12/356

NCBI tax ID(s): 1276936 (species)

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General

@ref: 24004

BacDive-ID: 132215

DSM-Number: 102853

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive

description: Staphylococcus pragensis NRL/St 12/356 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from Ejaculate .

NCBI tax id

  • NCBI tax id: 1276936
  • Matching level: species

strain history

  • @ref: 24004
  • history: <- CCM <- P. Petrás; NRL/St 12/356

doi: 10.13145/bacdive132215.20230509.8.1

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 pragensis
  • full scientific name: Staphylococcus pragensis (Švec et al. 2015) Madhaiyan et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Staphylococcus petrasii subsp. pragensis

@ref: 24004

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Caryophanales

family: Staphylococcaceae

genus: Staphylococcus

species: Staphylococcus pragensis

full scientific name: Staphylococcus pragensis (Švec et al. 2015) Madhaiyan et al. 2020

strain designation: NRL/St 12/356, P5397

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
24004TRYPTICASE 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
24004COLUMBIA 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
63799positivegrowth37mesophilic
24004positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 63799
  • oxygen tolerance: aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.67

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose+fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose+fermentation
6837917716lactose-fermentation
6837917992sucrose+fermentation
6837928087glycogen-fermentation
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
6837817634D-glucose-builds acid from
6837815824D-fructose+builds acid from
6837816024D-mannose-builds acid from
6837817306maltose-builds acid from
6837817716lactose+builds acid from
6837827082trehalose-builds acid from
6837816899D-mannitol+builds acid from
6837817151xylitol-builds acid from
6837828053melibiose-builds acid from
6837817632nitrate-reduction
6837816634raffinose+builds acid from
6837865327D-xylose-builds acid from
6837817992sucrose-builds acid from
68378320061methyl alpha-D-glucopyranoside+builds acid from
6837859640N-acetylglucosamine-builds acid from
6837829016arginine-hydrolysis
6837816199urea-hydrolysis

antibiotic resistance

@refmetaboliteis antibioticis sensitiveChEBIsensitivity conc.
68378lysostaphinyesyes
68375novobiocinyesyes283681.8 µg

metabolite production

@refChebi-IDmetaboliteproduction
6837815688acetoinno
6837515688acetoinyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6837815688acetoin-
6837515688acetoin+

enzymes

@refvalueactivityec
68378urease-3.5.1.5
68378arginine dihydrolase-3.5.3.6
68378alkaline phosphatase-3.1.3.1
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
68379catalase+1.11.1.6
68379gelatinase-
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase+3.4.19.3
68379pyrazinamidase+3.5.1.B15
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlGLURIBXYLMANMALLACSACGLYGCAT
63799-++---------+---+-+-+

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
63799--++------+----++---

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
24004----+--+-+-----+---+-+----
63799----+--+-+-----+---+-+----

API STA

@refGLUFRUMNEMALLACTREMANXLTMELNITPALVPRAFXYLSACMDGNAGADHURELSTR
63799-+--+-+-----+--+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
24004Ejaculate (58-year-old patient with chronical prostatitis)PragueCzech RepublicCZEEurope
63799Human ejaculate,chronical prostatitisPragueCzech RepublicCZEEurope2014

isolation source categories

Cat1Cat2Cat3
#Infection#Patient
#Host Body-Site#Urogenital tract
#Host Body Product#Urogenital tract#Semen
#Host#Human#Male

Sequence information

16S sequences

  • @ref: 24004
  • description: Staphylococcus petrasii subsp. pragensis strain CCM 8529 16S ribosomal RNA gene, partial sequence
  • accession: KM873669
  • length: 1480
  • database: ena
  • NCBI tax ID: 1611836

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Staphylococcus pragensis CCM 8529GCA_004785665scaffoldncbi1611836
66792Staphylococcus pragensis CCM 8529GCA_014635505contigncbi1611836
66792Staphylococcus petrasii subsp. pragensis strain CCM 85291611836.5wgspatric1611836
66792Staphylococcus petrasii subsp. pragensis strain CCM 85291611836.4wgspatric1611836
66792Staphylococcus petrasii subsp. pragensis strain DSM 1028531611836.3wgspatric1611836

GC content

  • @ref: 24004
  • GC-content: 33.0
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno81no
motileno88.03no
flagellatedno90.497no
gram-positiveyes90.349no
anaerobicno99.124yes
aerobicyes92.511no
halophileyes96.226no
spore-formingno90.445no
glucose-utilyes87.779no
thermophileno99.801no
glucose-fermentyes77.894yes

External links

@ref: 24004

culture collection no.: DSM 102853, CCM 8529, LMG 28327, CCUG 72270

straininfo link

  • @ref: 90568
  • straininfo: 396400

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
24004Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-102853Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102853)
63799Curators of the CCUGhttps://www.ccug.se/strain?id=72270Culture Collection University of Gothenburg (CCUG) (CCUG 72270)
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
68378Automatically annotated from API STA
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
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
90568Reimer, 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-ID396400.1