Strain identifier

BacDive ID: 14670

Type strain: Yes

Species: Staphylococcus pseudintermedius

Strain Designation: ON 86, R-20986, ON86

Strain history: CIP <- 2005, CCUG <- 2004, LMG <- M. Vancanneyt, Ghent, Belgium: strain R-20986 <- L. Devriese, Ghent Univ., Ghent, Belgium: strain ON86

NCBI tax ID(s): 283734 (species)

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General

@ref: 15503

BacDive-ID: 14670

DSM-Number: 21284

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

description: Staphylococcus pseudintermedius ON 86 is an aerobe, mesophilic, Gram-positive human pathogen that was isolated from lung tissue of cat.

NCBI tax id

  • NCBI tax id: 283734
  • Matching level: species

strain history

@refhistory
15503<- CCUG; CCUG 49543 {2007} <- LMG <- L. Devriese
67770LMG 22219 <-- M. Vancanneyt R-20986 <-- L. Devriese ON 86.
121980CIP <- 2005, CCUG <- 2004, LMG <- M. Vancanneyt, Ghent, Belgium: strain R-20986 <- L. Devriese, Ghent Univ., Ghent, Belgium: strain ON86

doi: 10.13145/bacdive14670.20230509.8.1

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 pseudintermedius
  • full scientific name: Staphylococcus pseudintermedius Devriese et al. 2005

@ref: 15503

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Staphylococcus

species: Staphylococcus pseudintermedius

full scientific name: Staphylococcus pseudintermedius Devriese et al. 2005

strain designation: ON 86, R-20986, ON86

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotility
31368positivecoccus-shaped
121980positivecoccus-shapedno

colony morphology

@reftype of hemolysishemolysis ability
15503beta1
1219801

pigmentation

  • @ref: 31368
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15503COLUMBIA 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
15503TRYPTICASE 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
36446MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121980CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
121980CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
15503positivegrowth37mesophilic
36446positivegrowth30mesophilic
58600positivegrowth30-37mesophilic
67770positivegrowth30mesophilic
121980positivegrowth22-45
121980nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31368aerobe
121980obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3136828757fructose+carbon source
3136828260galactose+carbon source
3136817234glucose+carbon source
3136817754glycerol+carbon source
3136817716lactose+carbon source
3136817306maltose+carbon source
3136829864mannitol+carbon source
3136837684mannose+carbon source
31368506227N-acetylglucosamine+carbon source
3136833942ribose+carbon source
3136817992sucrose+carbon source
3136827082trehalose+carbon source
3136816199urea+carbon source
3136817632nitrate+reduction
121980606565hippurate+hydrolysis
12198017632nitrate+reduction
12198016301nitrite-reduction
6837516199urea+hydrolysis
6837529016arginine+hydrolysis
6837518257ornithine-degradation
683754853esculin-hydrolysis
6837517634D-glucose+fermentation
6837515824D-fructose+fermentation
6837516024D-mannose+fermentation
6837517306maltose+fermentation
6837517716lactose+fermentation
6837527082trehalose+fermentation
6837516634raffinose-fermentation
6837516988D-ribose+fermentation
6837517057cellobiose-fermentation
6837517632nitrate+reduction
6837517992sucrose+fermentation
6837559640N-acetylglucosamine+fermentation
6837522599arabinose-fermentation

metabolite production

  • @ref: 121980
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12198015688acetoin-
12198017234glucose+

enzymes

@refvalueactivityec
15503catalase+1.11.1.6
15503cytochrome-c oxidase-1.9.3.1
31368catalase+1.11.1.6
31368urease+3.5.1.5
68375beta-glucuronidase-3.2.1.31
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
121980oxidase-
121980beta-galactosidase+3.2.1.23
121980alcohol dehydrogenase+1.1.1.1
121980gelatinase+/-
121980amylase-
121980DNase+/-
121980caseinase+3.4.21.50
121980catalase+1.11.1.6
121980coagulase+
121980tween esterase-
121980gamma-glutamyltransferase-2.3.2.2
121980lecithinase-
121980lipase-
121980lysine decarboxylase-4.1.1.18
121980ornithine decarboxylase-4.1.1.17
121980phenylalanine ammonia-lyase-4.3.1.24
121980protease+
121980urease+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
121980-+++-+----++-+-+----

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
15503++--+++++++-+-+-++/-++-+++--
15503++--+++++++-+-+-+-+--++---
15503++--+++++++-+-+++-++++++--
15503++--++++++--+-+-+--+-+++--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121980+++++--+-++++----+-+-----------+-+-++------------++--------++--------------+--++------+----+--+---+

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
15503lung tissue of catBelgiumBELEurope
58600Cat lung tissueBelgiumBELEurope
67770Lung tissue of a cat
121980Animal, Cat, lung tissueBelgiumBELEurope

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Felidae (Cat)
#Host Body-Site#Oral cavity and airways#Lung

taxonmaps

  • @ref: 69479
  • File name: preview.99_1134.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3;97_3;98_888;99_1134&stattab=map
  • Last taxonomy: Staphylococcus
  • 16S sequence: AJ780976
  • Sequence Identity:
  • Total samples: 413
  • soil counts: 3
  • aquatic counts: 5
  • animal counts: 399
  • plant counts: 6

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
15503yesyes2Risk group (German classification)
1219802Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Staphylococcus pseudintermedius strain LMG22219 16S ribosomal RNA gene, partial sequenceEU157264366ena283734
15503Staphylococcus pseudintermedius 16S rRNA gene, type strain LMG 22219TAJ7809761512ena283734

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Staphylococcus pseudintermedius strain CCUG 49543283734.1041wgspatric283734
66792Staphylococcus pseudintermedius strain FDAARGOS_930283734.2341completepatric283734
66792Staphylococcus pseudintermedius strain LMG 22219283734.201wgspatric283734
66792Staphylococcus pseudintermedius CCUG 495432917480293draftimg283734
66792Staphylococcus pseudintermedius LMG 222192917482833draftimg283734
67770Staphylococcus pseudintermedius LMG 22219GCA_001792775contigncbi283734
67770Staphylococcus pseudintermedius CCUG 49543GCA_002902125scaffoldncbi283734

GC content

@refGC-contentmethod
3136838
6777038high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno91.295no
gram-positiveyes90.998yes
anaerobicno99.227yes
halophileyes91.946no
spore-formingno85.889no
glucose-utilyes89.04no
flagellatedno93.269no
aerobicyes89.989no
thermophileno99.82yes
glucose-fermentyes86.492yes

External links

@ref: 15503

culture collection no.: DSM 21284, CCUG 49543, CIP 108864, LMG 22219, JCM 17571, CCUG 22219

straininfo link

  • @ref: 83796
  • straininfo: 132005

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16014483Staphylococcus pseudintermedius sp. nov., a coagulase-positive species from animals.Devriese LA, Vancanneyt M, Baele M, Vaneechoutte M, De Graef E, Snauwaert C, Cleenwerck I, Dawyndt P, Swings J, Decostere A, Haesebrouck FInt J Syst Evol Microbiol10.1099/ijs.0.63413-02005Animals, Cats/*microbiology, Coagulase/*metabolism, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Dogs/*microbiology, Genes, rRNA, Horses/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Parrots/*microbiology, Phenotype, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Species Specificity, Staphylococcus/*classification/enzymology/genetics/growth & developmentGenetics
Phylogeny17596353Reclassification of phenotypically identified staphylococcus intermedius strains.Sasaki T, Kikuchi K, Tanaka Y, Takahashi N, Kamata S, Hiramatsu KJ Clin Microbiol10.1128/JCM.00360-072007Animal Diseases/microbiology, Animals, Bacterial Proteins/genetics, Bacterial Typing Techniques, Cats, Chaperonin 60/genetics, Cluster Analysis, Columbidae, DNA, Bacterial/chemistry/*genetics, Disaccharides/metabolism, Dogs, Endonucleases/genetics, Horses, Humans, Hydrolases/analysis, Mannitol/metabolism, Micrococcal Nuclease/genetics, Mink, Nucleic Acid Hybridization, *Phylogeny, Sequence Analysis, DNA, Staphylococcal Infections/microbiology/veterinary, Staphylococcus/*classification/*genetics/isolation & purification/metabolism, Superoxide Dismutase/geneticsMetabolism
Genetics28209834Complete Genome Sequence of Staphylococcus pseudintermedius Type Strain LMG 22219.Abouelkhair MA, Riley MC, Bemis DA, Kania SAGenome Announc10.1128/genomeA.01651-162017
Phylogeny32672529Staphylococcus ursi sp. nov., a new member of the 'Staphylococcus intermedius group' isolated from healthy black bears.Perreten V, Kania SA, Bemis DInt J Syst Evol Microbiol10.1099/ijsem.0.0043242020Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Staphylococcus/*classification/isolation & purification, Staphylococcus intermedius/genetics, Tennessee, Ursidae/*microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
15503Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21284)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21284
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
31368Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604127681
36446Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6541
58600Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 49543)https://www.ccug.se/strain?id=49543
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
83796Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID132005.1StrainInfo: A central database for resolving microbial strain identifiers
121980Curators of the CIPCollection of Institut Pasteur (CIP 108864)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108864