Strain identifier

BacDive ID: 14676

Type strain: Yes

Species: Staphylococcus devriesei

Strain Designation: KS-SP60, KS-SP 60

Strain history: CIP <- 2010, S. De Vliegher, Ghent Univ., Merelbeke, Belgium: strain KS-SP 60

NCBI tax ID(s): 586733 (species)

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General

@ref: 17985

BacDive-ID: 14676

DSM-Number: 25293

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

description: Staphylococcus devriesei KS-SP60 is a facultative aerobe, mesophilic, Gram-positive bacterium that was isolated from teat apex of a Belgian dairy heifer.

NCBI tax id

  • NCBI tax id: 586733
  • Matching level: species

strain history

@refhistory
17985<- CCUG <- S. Piepers, Univ. Ghent, Belgium
118922CIP <- 2010, S. De Vliegher, Ghent Univ., Merelbeke, Belgium: strain KS-SP 60

doi: 10.13145/bacdive14676.20230509.8.1

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 devriesei
  • full scientific name: Staphylococcus devriesei Supré et al. 2010

@ref: 17985

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Staphylococcus

species: Staphylococcus devriesei

full scientific name: Staphylococcus devriesei Supré et al. 2010

strain designation: KS-SP60, KS-SP 60

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotility
29566positivecoccus-shapedno
118922positivecoccus-shapedno

colony morphology

@reftype of hemolysishemolysis abilityincubation period
17985beta11-2 days
616391-2 days

pigmentation

  • @ref: 29566
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17985COLUMBIA 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
17985TRYPTICASE 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
40476MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
118922CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
17985positivegrowth37mesophilic
29566positivegrowth25-42
29566positiveoptimum28-35mesophilic
40476positivegrowth37mesophilic
61639positivegrowth37mesophilic

culture pH

@refabilitytypepH
29566positivegrowth7
29566positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29566facultative aerobe
61639aerobe
118922facultative anaerobe

spore formation

  • @ref: 29566
  • spore formation: no

observation

  • @ref: 29566
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2956628757fructose+carbon source
2956628260galactose+carbon source
2956617754glycerol+carbon source
2956617716lactose+carbon source
2956617306maltose+carbon source
2956629864mannitol+carbon source
2956633942ribose+carbon source
2956617992sucrose+carbon source
2956627082trehalose+carbon source
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose+builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose+builds acid from
6837117992sucrose+builds acid from
6837128053melibiose-builds acid from
6837117716lactose+builds acid from
6837117306maltose+builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
11892217632nitrate+reduction
11892216301nitrite-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

@refChebi-IDmetaboliteproduction
6837515688acetoinno
11892235581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
17985catalase+1.11.1.6
17985cytochrome-c oxidase-1.9.3.1
29566catalase+1.11.1.6
29566urease+3.5.1.5
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
118922oxidase-
118922catalase+1.11.1.6
118922urease+3.5.1.5
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 zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
118922--++----+------++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
118922+/---------+++-----+/----------++-++-------+---------

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
17985+---+++++++---+------+----

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling dateisolation date
17985teat apex of a Belgian dairy heiferBelgiumBELEurope
61639Teat apex,healthy dairy heiferBelgiumBELEurope2006
118922Belgian dairy heifer, teat apexBelgiumBELEurope2006

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_178.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3;97_3;98_3;99_178&stattab=map
  • Last taxonomy: Staphylococcus
  • 16S sequence: FJ389206
  • Sequence Identity:
  • Total samples: 261
  • soil counts: 23
  • aquatic counts: 6
  • animal counts: 232

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
179851Risk group (German classification)
1189221Risk group (French classification)

Sequence information

16S sequences

  • @ref: 17985
  • description: Staphylococcus devriesei strain KS-SP 60 16S ribosomal RNA gene, partial sequence
  • accession: FJ389206
  • length: 1537
  • database: ena
  • NCBI tax ID: 586733

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Staphylococcus devriesei CCUG 58238GCA_002902625scaffoldncbi586733
66792Staphylococcus devriesei strain CCUG 58238586733.6wgspatric586733
66792Staphylococcus devriesei CCUG 582382917466835draftimg586733

GC content

@refGC-content
1798533.3
2956633.3-33.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno91.61yes
gram-positiveyes90.985yes
anaerobicno99.197no
aerobicyes92.684no
halophileyes96.782no
spore-formingno93.488yes
glucose-utilyes87.986no
thermophileno99.433yes
motileno90.695yes
glucose-fermentyes81.104yes

External links

@ref: 17985

culture collection no.: DSM 25293, CCUG 58238, LMG 25332, CCM 7896, CIP 110234

straininfo link

  • @ref: 83802
  • straininfo: 364091

literature

  • topic: Phylogeny
  • Pubmed-ID: 20061496
  • title: Staphylococcus devriesei sp. nov., isolated from teat apices and milk of dairy cows.
  • authors: Supre K, De Vliegher S, Cleenwerck I, Engelbeen K, Van Trappen S, Piepers S, Sampimon OC, Zadoks RN, De Vos P, Haesebrouck F
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.015982-0
  • year: 2010
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, Belgium, Cattle/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Female, Genes, Bacterial, Mammary Glands, Animal/*microbiology, Milk/*microbiology, Molecular Sequence Data, Netherlands, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Staphylococcus/*classification/genetics/isolation & purification
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17985Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25293)https://www.dsmz.de/collection/catalogue/details/culture/DSM-25293
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
29566Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2596128776041
40476Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8071
61639Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 58238)https://www.ccug.se/strain?id=58238
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)
68371Automatically annotated from API 50CH acid
68375Automatically annotated from API ID32STA
68382Automatically annotated from API zym
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
83802Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID364091.1StrainInfo: A central database for resolving microbial strain identifiers
118922Curators of the CIPCollection of Institut Pasteur (CIP 110234)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110234