Strain identifier

BacDive ID: 14576

Type strain: No

Species: Staphylococcus sp.

Strain history: <- CCM <- NCTC <- Brit. Disinfect. Manufact. Association

NCBI tax ID(s): 29387 (species)

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General

@ref: 8445

BacDive-ID: 14576

DSM-Number: 20039

keywords: genome sequence, Bacteria, mesophilic, Gram-positive

description: Staphylococcus sp. DSM 20039 is a mesophilic, Gram-positive bacterium of the family Staphylococcaceae.

NCBI tax id

  • NCBI tax id: 29387
  • Matching level: species

strain history

  • @ref: 8445
  • history: <- CCM <- NCTC <- Brit. Disinfect. Manufact. Association

doi: 10.13145/bacdive14576.20230509.8.1

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 sp.
  • full scientific name: Staphylococcus Rosenbach 1884 (Approved Lists 1980)

@ref: 8445

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Staphylococcus

species: Staphylococcus sp.

full scientific name: Staphylococcus sp.

type strain: no

Morphology

cell morphology

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

Culture and growth conditions

culture medium

  • @ref: 8445
  • name: CORYNEBACTERIUM AGAR (DSMZ Medium 53)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/53
  • composition: Name: CORYNEBACTERIUM AGAR (DSMZ Medium 53) Composition: Agar 15.0 g/l Casein peptone 10.0 g/l NaCl 5.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Distilled water

culture temp

  • @ref: 8445
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no97
69480no99.651

murein

  • @ref: 8445
  • murein short key: A11.02
  • type: A3alpha L-Lys-Gly5-6

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 resistantChEBIis sensitivesensitivity conc.
68378lysostaphinyesyes
68375novobiocinyes28368yes1.8 µg

metabolite production

@refChebi-IDmetaboliteproduction
6837815688acetoinyes
6837515688acetoinno

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

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    44678C14:00.414
    44678C15:00.515
    44678C16:02.516
    44678C17:00.817
    44678C18:02.318
    44678C19:00.419
    44678C20:00.420
    44678C13:0 iso0.312.612
    44678C14:0 ISO213.618
    44678C15:0 ANTEISO52.614.711
    44678C15:0 ISO12.914.621
    44678C16:0 iso2.115.626
    44678C17:0 anteiso12.116.722
    44678C17:0 iso5.216.629
    44678C18:0 ISO0.317.632
    44678C18:1 ω9c0.817.769
    44678C18:2 ω6,9c/C18:0 ANTE2.417.724
    44678C19:0 ANTEISO0.618.729
    44678C19:0 ISO0.418.633
    44678C20:2 ω6,9c0.819.735
    44678Unidentified0.313.24
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlGLURIBXYLMANMALLACSACGLYGCAT
44678++++++---++-++-+-++-+

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
44678-+------------------

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
44678++--+++-+++---+-+--+-++--+

API STA

@refGLUFRUMNEMALLACTREMANXLTMELNITPALVPRAFXYLSACMDGNAGADHURELSTR
44678-+++-+++--+++--+-+++

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Staphylococcus simulans NCTC7944GCA_900636345completencbi1286
66792Staphylococcus hyicus strain NCTC79441284.38completepatric1284

GC content

  • @ref: 8445
  • GC-content: 36.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno97no
flagellatedno90.124no
flagellatedno90.124no
gram-positiveyes90.239no
gram-positiveyes90.239no
anaerobicno98.699no
anaerobicno98.699no
aerobicyes86.069no
aerobicyes86.069no
halophileyes94.077no
halophileyes94.077no
spore-formingno90.93no
spore-formingno90.93no
thermophileno99.716yes
thermophileno99.716yes
glucose-utilyes88.292no
glucose-utilyes88.292no
motileno85.132no
motileno85.132no
glucose-fermentyes81.908no
glucose-fermentyes81.908no

External links

@ref: 8445

culture collection no.: DSM 20039, CCM 2340, NCTC 7944, CCUG 3708

straininfo link

  • @ref: 83706
  • straininfo: 49567

Reference

@idauthorscataloguedoi/urltitle
8445Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20039)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20039
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
44678Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 3708)https://www.ccug.se/strain?id=3708
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
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 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
83706Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49567.1StrainInfo: A central database for resolving microbial strain identifiers