Strain identifier

BacDive ID: 14602

Type strain: Yes

Species: Staphylococcus capitis subsp. urealyticus

Strain history: CIP <- 1994, C. George, North Carolina State Univ., Raleigh, NC, USA <- W.E. Kloos: strain MAW 8434

NCBI tax ID(s): 74703 (subspecies)

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General

@ref: 2784

BacDive-ID: 14602

DSM-Number: 6717

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

description: Staphylococcus capitis subsp. urealyticus CCUG 35142 is an aerobe, mesophilic, Gram-positive human pathogen that was isolated from human skin.

NCBI tax id

  • NCBI tax id: 74703
  • Matching level: subspecies

strain history

@refhistory
2784<- ATCC <- W.E. Kloos, MAW 8436
117148CIP <- 1994, C. George, North Carolina State Univ., Raleigh, NC, USA <- W.E. Kloos: strain MAW 8434

doi: 10.13145/bacdive14602.20230509.8.1

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 capitis subsp. urealyticus
  • full scientific name: Staphylococcus capitis subsp. urealyticus corrig. Bannerman and Kloos 1991

  • synonyms

    • @ref: 20215
    • synonym: Staphylococcus capitis subsp. ureolyticus

@ref: 2784

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Staphylococcus

species: Staphylococcus capitis subsp. urealyticus

full scientific name: Staphylococcus capitis subsp. urealyticus Bannerman and Kloos 1991

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
117148positivecoccus-shapedno

colony morphology

@reftype of hemolysishemolysis ability
2784alpha/beta1
1171481

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2784COLUMBIA 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
2784TRYPTICASE 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
41039MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
117148CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
2784positivegrowth37mesophilic
41039positivegrowth37mesophilic
52548positivegrowth37mesophilic
117148positivegrowth37-45
117148nogrowth15psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
52548aerobe
117148facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no98.807

murein

  • @ref: 2784
  • murein short key: A11.03
  • type: A3alpha L-Lys-Gly2-4-L-Ser1-2-Gly

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
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
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
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol+builds acid from17754
117148esculin-hydrolysis4853
117148nitrate+reduction17632
117148nitrite-reduction16301
68375ornithine-degradation18257
68375esculin-hydrolysis4853
68375D-glucose+fermentation17634
68375D-fructose+fermentation15824
68375D-mannose+fermentation16024
68375maltose+fermentation17306
68375lactose+fermentation17716
68375trehalose-fermentation27082
68375D-mannitol+fermentation16899
68375raffinose-fermentation16634
68375D-ribose-fermentation16988
68375cellobiose-fermentation17057
68375nitrate+reduction17632
68375sucrose+fermentation17992
68375N-acetylglucosamine-fermentation59640
68375turanose-fermentation32528
68375arabinose-fermentation22599

antibiotic resistance

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

metabolite production

@refChebi-IDmetaboliteproduction
6837515688acetoinyes
11714835581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6837515688acetoin+
11714815688acetoin+

enzymes

@refvalueactivityec
68375beta-glucuronidase-3.2.1.31
68375L-arginine arylamidase-
68375beta-galactosidase-3.2.1.23
68375beta-glucosidase-3.2.1.21
68375ornithine decarboxylase-4.1.1.17
117148oxidase-
117148beta-galactosidase-3.2.1.23
117148alcohol dehydrogenase+1.1.1.1
117148gelatinase+/-
117148DNase-
117148catalase+1.11.1.6
117148coagulase-
117148lecithinase-
117148lysine decarboxylase-4.1.1.18
117148ornithine decarboxylase-4.1.1.17
117148urease+3.5.1.5

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
117148+---+/-----++++----+---------+--+--+/------+/----------

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
2784----+++++-+---++----++----
2784++--+++++-+---++--++/-++----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
2784human skin
52548Human skin
117148Human, Skin: scalpNorth CarolinaUnited States of AmericaUSANorth America1984

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_86.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3;97_3;98_3;99_86&stattab=map
  • Last taxonomy: Staphylococcus
  • 16S sequence: AB009937
  • Sequence Identity:
  • Total samples: 8633
  • soil counts: 44
  • aquatic counts: 284
  • animal counts: 8287
  • plant counts: 18

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
2784yes, in single cases1Risk group (German classification)
1171481Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Staphylococcus capitis subsp. urealyticus strain DSM 6717 16S ribosomal RNA gene, partial sequenceAY688040464ena74703
2784Staphylococcus capitis subsp. urealyticus rrn gene for 16S ribosomal RNAAB0099371492ena74703

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Staphylococcus capitis subsp. urealyticus DSM 6717GCA_002901925scaffoldncbi74703
66792Staphylococcus capitis subsp. urealyticus strain DSM 671774703.3wgspatric74703
66792Staphylococcus capitis urealyticus DSM 67172917448220draftimg74703

GC content

  • @ref: 2784
  • GC-content: 39.0
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno92.81no
gram-positiveyes91.964no
anaerobicno99.268yes
aerobicyes92.451yes
halophileyes95.484no
spore-formingno92.369no
glucose-utilyes90.662no
thermophileno99.912no
motileno91.749no
glucose-fermentyes82.695yes

External links

@ref: 2784

culture collection no.: CCUG 35142, DSM 6717, ATCC 49326, MAW 8436, CIP 104192, MAW 8434

straininfo link

  • @ref: 83732
  • straininfo: 42424

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2784Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6717)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6717
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
41039Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16073
52548Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 35142)https://www.ccug.se/strain?id=35142
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)
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
83732Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID42424.1StrainInfo: A central database for resolving microbial strain identifiers
117148Curators of the CIPCollection of Institut Pasteur (CIP 104192)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104192