Strain identifier

BacDive ID: 14556

Type strain: Yes

Species: Staphylococcus kloosii

Strain history: CIP <- 1995, N. El Solh, Inst. Pasteur, Paris, France <- K.H. Schleifer <- W.E. Kloos: strain SC 210

NCBI tax ID(s): 29384 (species)

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General

@ref: 8998

BacDive-ID: 14556

DSM-Number: 20676

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

description: Staphylococcus kloosii DSM 20676 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from skin of squirrel.

NCBI tax id

  • NCBI tax id: 29384
  • Matching level: species

strain history

@refhistory
8998<- K.H. Schleifer <- W.E Kloos, SC 210
120451CIP <- 1995, N. El Solh, Inst. Pasteur, Paris, France <- K.H. Schleifer <- W.E. Kloos: strain SC 210

doi: 10.13145/bacdive14556.20230509.8.1

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 kloosii
  • full scientific name: Staphylococcus kloosii Schleifer et al. 1985

@ref: 8998

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Staphylococcus

species: Staphylococcus kloosii

full scientific name: Staphylococcus kloosii Schleifer et al. 1985

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
120451positivecoccus-shapedno

colony morphology

  • @ref: 120451
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8998COLUMBIA 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
8998TRYPTICASE 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
37980MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
120451CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
8998positivegrowth37mesophilic
37980positivegrowth37mesophilic
49913positivegrowth37mesophilic
120451positivegrowth15-37
120451nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
49913aerobe
120451obligate aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.743

murein

  • @ref: 8998
  • murein short key: A11.02
  • type: A3alpha L-Lys-Gly5-6

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol+builds acid from17754
120451esculin-hydrolysis4853
120451nitrate-reduction17632
120451nitrite-reduction16301
68375urea+hydrolysis16199
68375arginine-hydrolysis29016
68375ornithine-degradation18257
68375esculin-hydrolysis4853
68375D-glucose+fermentation17634
68375D-fructose+fermentation15824
68375D-mannose-fermentation16024
68375D-ribose+fermentation16988
68375cellobiose-fermentation17057
68375nitrate-reduction17632
68375sucrose-fermentation17992
68375N-acetylglucosamine-fermentation59640
68375turanose-fermentation32528

metabolite production

@refChebi-IDmetaboliteproduction
6837515688acetoinno
12045135581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6837515688acetoin-
12045115688acetoin-

enzymes

@refvalueactivityec
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
120451oxidase-
120451beta-galactosidase+3.2.1.23
120451alcohol dehydrogenase-1.1.1.1
120451gelatinase-
120451DNase-
120451caseinase+3.4.21.50
120451catalase+1.11.1.6
120451coagulase-
120451lecithinase-
120451lysine decarboxylase-4.1.1.18
120451ornithine decarboxylase-4.1.1.17
120451urease+3.5.1.5

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120451+--++----++++----+---------++--+-----------------

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
8998+---++-++++-+---+-+++---++
8998+---++-+/-+/-+/-+/-++--+-++/-+/----+/-+

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
8998skin of squirrel
49913Squirrel skinUSAUSANorth America
120451Animal, Squirrel, skin

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Rodentia (Other)
#Host Body-Site#Organ#Skin, Nail, Hair

taxonmaps

  • @ref: 69479
  • File name: preview.99_5473.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3;97_3;98_4088;99_5473&stattab=map
  • Last taxonomy: Staphylococcus
  • 16S sequence: AB009940
  • Sequence Identity:
  • Total samples: 481
  • soil counts: 7
  • aquatic counts: 8
  • animal counts: 454
  • plant counts: 12

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
89981Risk group (German classification)
1204511Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Staphylococcus kloosii 16S ribosomal RNA gene, partial sequenceAF041360913ena29384
20218Staphylococcus kloosii strain DSM 20676 16S ribosomal RNA gene, partial sequenceAY688071464ena29384
20218S.arlettae gene for 16S ribosomal RNAZ26888771ena29378
20218S.kloosii gene for 16S ribosomal RNAZ26898771ena29384
8998Staphylococcus kloosii rrn gene for 16S ribosomal RNAAB0099401494ena29384

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Staphylococcus kloosii ATCC 43959GCA_003019255completencbi29384
66792Staphylococcus kloosii strain ATCC 4395929384.15completepatric29384

GC content

  • @ref: 8998
  • GC-content: 32.3

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno89no
flagellatedno89.593no
gram-positiveyes89.042no
anaerobicno99.326yes
halophileyes95.339no
spore-formingno88.846no
glucose-utilyes89.1no
aerobicyes91.246no
thermophileno99.826yes
motileno87.576no
glucose-fermentyes81.708yes

External links

@ref: 8998

culture collection no.: DSM 20676, ATCC 43959, CCUG 30110, CCM 3834, SC 210, CIP 103503, GIFU 10764

straininfo link

  • @ref: 83687
  • straininfo: 105406

literature

  • topic: Genetics
  • Pubmed-ID: 29773625
  • title: Complete Genome Sequences of the Potential Zoonotic Pathogens Staphylococcus felis and Staphylococcus kloosii.
  • authors: Mascarenhas Dos Santos AC, Jie R, Antunes Godoy H, Alves M, Pombert JF
  • journal: Genome Announc
  • DOI: 10.1128/genomeA.00404-18
  • year: 2018

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8998Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20676)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20676
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
37980Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15307
49913Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 30110)https://www.ccug.se/strain?id=30110
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
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
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)
83687Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID105406.1StrainInfo: A central database for resolving microbial strain identifiers
120451Curators of the CIPCollection of Institut Pasteur (CIP 103503)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103503