Strain identifier

BacDive ID: 14599

Type strain: Yes

Species: Staphylococcus xylosus

Strain Designation: KL 162, KL62

Strain history: CIP <- 1981, J. Pillet, Inst. Pasteur, Paris, France <- ATCC <- W.E. Kloos: strain KL62

NCBI tax ID(s): 1288 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 8675

BacDive-ID: 14599

DSM-Number: 20266

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

description: Staphylococcus xylosus KL 162 is an aerobe, mesophilic, Gram-positive human pathogen that was isolated from human skin.

NCBI tax id

  • NCBI tax id: 1288
  • Matching level: species

strain history

@refhistory
8675<- K.H. Schleifer <- W.E. Kloos, KL 162
67770Y. Kosako <-- R. Sakazaki <-- ATCC 29971 <-- W. E. Kloos KL 162.
124005CIP <- 1981, J. Pillet, Inst. Pasteur, Paris, France <- ATCC <- W.E. Kloos: strain KL62

doi: 10.13145/bacdive14599.20230509.8.1

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 xylosus
  • full scientific name: Staphylococcus xylosus Schleifer and Kloos 1975 (Approved Lists 1980)

@ref: 8675

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Staphylococcus

species: Staphylococcus xylosus

full scientific name: Staphylococcus xylosus Schleifer and Kloos 1975

strain designation: KL 162, KL62

type strain: yes

Morphology

cell morphology

  • @ref: 124005
  • gram stain: positive
  • cell shape: coccus-shaped
  • motility: no

colony morphology

@reftype of hemolysisincubation period
8675gamma1-2 days
124005

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8675TRYPTICASE 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
8675COLUMBIA 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
37623MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
124005CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperaturerange
8675positivegrowth37mesophilic
37623positivegrowth37mesophilic
44975positivegrowth37mesophilic
67770positivegrowth37mesophilic
124005positivegrowth22-41
124005nogrowth10psychrophilic
124005nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
44975aerobe
124005facultative anaerobe

murein

  • @ref: 8675
  • murein short key: A11.02
  • type: A3alpha L-Lys-Gly5-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
124005606565hippurate+hydrolysis
12400517632nitrate-builds gas from
12400517632nitrate+reduction
12400516301nitrite+reduction
6837516199urea+hydrolysis
6837529016arginine-hydrolysis
6837518257ornithine-degradation
683754853esculin-hydrolysis
6837517634D-glucose+fermentation
6837515824D-fructose+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

antibiotic resistance

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

metabolite production

@refChebi-IDmetaboliteproduction
6837515688acetoinno
12400535581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
6837515688acetoin-
12400517234glucose-

enzymes

@refvalueactivityec
8675catalase+1.11.1.6
8675cytochrome-c oxidase-1.9.3.1
68375beta-glucuronidase+3.2.1.31
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
124005oxidase-
124005beta-galactosidase+3.2.1.23
124005alcohol dehydrogenase-1.1.1.1
124005amylase-
124005DNase-
124005coagulase-
124005tween esterase-
124005gamma-glutamyltransferase-2.3.2.2
124005lecithinase-
124005lipase-
124005lysine decarboxylase-4.1.1.18
124005ornithine decarboxylase-4.1.1.17
124005phenylalanine ammonia-lyase-4.3.1.24
124005protease-
124005urease+/-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
124005-+++------+--+++----

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
8675+---+++++++---+-+-+++++-+/-+
8675+---+++++++---+-+-+++++-++
8675+---+++++++---+-+-+++++-++
8675+---++-++++---+-+-++/-+++-+/-+
8675+---+++++++---+-+-++/-+++-+/-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
124005---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample type
8675human skin
44975Human skin
67770Human skin
124005Human, Skin

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Organ#Skin, Nail, Hair

taxonmaps

  • @ref: 69479
  • File name: preview.99_63.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3;97_3;98_3;99_63&stattab=map
  • Last taxonomy: Staphylococcus
  • 16S sequence: AM237368
  • Sequence Identity:
  • Total samples: 26921
  • soil counts: 930
  • aquatic counts: 1554
  • animal counts: 23674
  • plant counts: 763

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
8675yes, in single casesyes, in single cases1Risk group (German classification)
1240051Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Staphylococcus xylosus partial 16S rRNA gene, isolate OS-69.aAM2373681456ena1288
20218Staphylococcus xylosus gene for 16S rRNA, partial sequence, strain: ATCC 29971 (= MAFF 911482)D833741477ena1288
20218Staphylococcus xylosus strain ATCC 29971 16S ribosomal RNA gene, partial sequenceFJ971865804ena1288
20218Staphylococcus xylosus 16S ribosomal RNA gene, partial sequenceAF041357924ena1288
20218Staphylococcus xylosus strain DSM20266T 16S ribosomal RNA gene, partial sequenceAY126246512ena1288
20218Staphylococcus xylosus strain DSM 20266 16S ribosomal RNA gene, partial sequenceAY688107464ena1288
20218S.xylosus gene for 16S ribosomal RNAZ26900771ena1288
20218Staphylococcus xylosus gene for 16S rRNA, partial sequence, strain: JCM 2418AB6261291475ena1288

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Staphylococcus xylosus Staphylococcus xylosus ATCC 29971GCA_900240095chromosomencbi1288
66792Staphylococcus xylosus strain CCM 27381288.120wgspatric1288
66792Staphylococcus xylosus strain NBRC 1097701288.190wgspatric1288
66792Staphylococcus xylosus strain NCTC 110431288.129wgspatric1288
66792Staphylococcus xylosus strain NCTC110431288.169wgspatric1288
66792Staphylococcus xylosus strain Staphylococcus xylosus ATCC 299711288.130completepatric1288
67770Staphylococcus xylosus CCM 2738GCA_002732165contigncbi1288
67770Staphylococcus xylosus NCTC 11043GCA_002901985scaffoldncbi1288
67770Staphylococcus xylosus NCTC11043GCA_900458755contigncbi1288
66792Staphylococcus xylosus NBRC 109770GCA_007992815contigncbi1288

GC content

@refGC-contentmethod
867536.2
6777034.2thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno89.64no
gram-positiveyes91.13no
anaerobicno99.177yes
aerobicyes91.754yes
halophileyes95.723no
spore-formingno91.294no
thermophileno99.858no
glucose-utilyes89.703no
flagellatedno89.884no
glucose-fermentyes83.835yes

External links

@ref: 8675

culture collection no.: CCUG 7324, NCTC 11043, DSM 20266, ATCC 29971, CCM 2738, JCM 2418, BCRC 12930, CECT 237, CIP 81.66, HAMBI 2057, KCTC 3342, LMG 20217, MTCC 6149, NBRC 109770, NCAIM B.02008, NRRL B-14776, VTT E-97787

straininfo link

  • @ref: 83729
  • straininfo: 39815

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology6477033Structure and biosynthesis of teichoic acids in the cell walls of Staphylococcus xylosus DSM 20266.Fiedler F, Steber JArch Microbiol10.1007/BF004108981984Cell Fractionation, Cell Membrane/ultrastructure, Cell Wall/ultrastructure, Kinetics, Nucleoside Diphosphate Sugars/metabolism, Staphylococcus/*metabolism, Teichoic Acids/*biosynthesis/isolation & purificationMetabolism
Enzymology11849340Monitoring of Staphylococcus xylosus DSM 20266 added as starter during fermentation and ripening of soppressata molisana, a typical Italian sausage.Di Maria S, Basso AL, Santoro E, Grazia L, Coppola RJ Appl Microbiol10.1046/j.1365-2672.2002.01512.x2002Animals, Bacterial Typing Techniques, Electrophoresis, Gel, Pulsed-Field, Fermentation, Food Handling/*methods, Meat Products/*microbiology, *Random Amplified Polymorphic DNA Technique, Staphylococcus/*classification/genetics/isolation & purification, SwinePhylogeny
Phylogeny14657137Staphylococcus nepalensis sp. nov., isolated from goats of the Himalayan region.Spergser J, Wieser M, Taubel M, Rossello-Mora RA, Rosengarten R, Busse HJInt J Syst Evol Microbiol10.1099/ijs.0.02646-02003Altitude, Animals, DNA Fingerprinting, Geography, Goats/*microbiology, India, Microbial Sensitivity Tests, Molecular Sequence Data, *Phylogeny, Polymerase Chain Reaction, Staphylococcus/*classification/genetics/isolation & purification/physiologyGenetics
Proteome30319582Proteome Response of Staphylococcus xylosus DSM 20266T to Anaerobiosis and Nitrite Exposure.Quintieri L, Giribaldi M, Giuffrida MG, Creanza TM, Ancona N, Cavallarin L, De Angelis M, Caputo LFront Microbiol10.3389/fmicb.2018.022752018
34828853Contribution of Microorganisms to Biogenic Amine Accumulation during Fish Sauce Fermentation and Screening of Novel Starters.Ma X, Bi J, Li X, Zhang G, Hao H, Hou HFoods10.3390/foods101125722021

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8675Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20266)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20266
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
37623Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/11230
44975Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 7324)https://www.ccug.se/strain?id=7324
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
83729Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID39815.1StrainInfo: A central database for resolving microbial strain identifiers
124005Curators of the CIPCollection of Institut Pasteur (CIP 81.66)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2081.66