Strain identifier

BacDive ID: 14517

Type strain: Yes

Species: Staphylococcus chromogenes

Strain Designation: 1462

Strain history: CIP <- 1981, CCM <- V. Hajek <- A. Baird-Parker: strain 1462, Staphylococcus hyicus subsp. chromogenes

NCBI tax ID(s): 46126 (species)

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

@ref: 8826

BacDive-ID: 14517

DSM-Number: 20454

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

description: Staphylococcus chromogenes 1462 is an aerobe, mesophilic, Gram-positive animal pathogen that was isolated from pig skin.

NCBI tax id

  • NCBI tax id: 46126
  • Matching level: species

strain history

@refhistory
8826<- K. H. Schleifer; <- NCTC; NCTC 10530 <- A.C. Baird-Parker; 1462
118260CIP <- 1981, CCM <- V. Hajek <- A. Baird-Parker: strain 1462, Staphylococcus hyicus subsp. chromogenes

doi: 10.13145/bacdive14517.20230509.8.1

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 chromogenes
  • full scientific name: Staphylococcus chromogenes (Devriese et al. 1978) Hájek et al. 1987
  • synonyms

    • @ref: 20215
    • synonym: Staphylococcus hyicus subsp. chromogenes

@ref: 8826

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Staphylococcus

species: Staphylococcus chromogenes

full scientific name: Staphylococcus chromogenes (Devriese et al. 1978) Hájek et al. 1987

strain designation: 1462

type strain: yes

Morphology

cell morphology

  • @ref: 118260
  • gram stain: positive
  • cell shape: coccus-shaped
  • motility: no

colony morphology

  • @ref: 118260

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8826COLUMBIA 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
8826TRYPTICASE 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
37622MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
118260CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
8826positivegrowth37mesophilic
37622positivegrowth37mesophilic
44737positivegrowth37mesophilic
118260positivegrowth22-41
118260nogrowth10psychrophilic
118260nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
44737aerobe
118260facultative anaerobe

murein

  • @ref: 8826
  • 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
118260hippurate+hydrolysis606565
118260nitrate+reduction17632
118260nitrite-reduction16301
68375urea+hydrolysis16199
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
68375turanose-fermentation32528
68375arabinose-fermentation22599

antibiotic resistance

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

metabolite production

@refChebi-IDmetaboliteproduction
6837515688acetoinno
11826035581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6837515688acetoin-
11826015688acetoin-

enzymes

@refvalueactivityec
68375beta-glucuronidase-3.2.1.31
68375pyrrolidonyl arylamidase-3.4.19.3
68375alkaline phosphatase+3.1.3.1
68375L-arginine arylamidase-
68375beta-glucosidase-3.2.1.21
68375ornithine decarboxylase-4.1.1.17
68375urease+3.5.1.5
118260oxidase-
118260beta-galactosidase+3.2.1.23
118260alcohol dehydrogenase+1.1.1.1
118260gelatinase+
118260amylase-
118260DNase+/-
118260caseinase+3.4.21.50
118260catalase+1.11.1.6
118260coagulase-
118260tween esterase-
118260gamma-glutamyltransferase-2.3.2.2
118260lecithinase-
118260lipase+
118260lysine decarboxylase-4.1.1.18
118260ornithine decarboxylase-4.1.1.17
118260phenylalanine ammonia-lyase-4.3.1.24
118260urease+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
118260-++++-----++-+-+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
118260+/----+----++++---------------+-++-----------------

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
8826++--+++-++--+-+---+--+----
8826++--+++-++--+-+-+-+--+----
8826+---+++-++--+-+---+--++/----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118260++-++--+---++----+-+-----------+-----------------+---------++--------------+--+++-----+--++++++---+

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
8826pig skin
44737Pig skin
118260Healthy pig, skinUnited KingdomGBREurope

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Suidae (Pig,Swine)
#Host Body-Site#Organ#Skin, Nail, Hair

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
8826yes2Risk group (German classification)
1182601Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Staphylococcus chromogenes gene for 16S rRNA, partial sequence, strain: ATCC 43764 (= MAFF 911474)D833601475ena46126
20218Staphylococcus chromogenes 16S-23S ribosomal RNA spacer regionU39770279ena1284
20218Staphylococcus chromogenes strain DSM 20454 16S ribosomal RNA gene, partial sequenceAY688044464ena46126

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Staphylococcus chromogenes NCTC10530GCA_900458195contigncbi46126
66792Staphylococcus chromogenes CCM 3387GCA_014635745scaffoldncbi46126
66792Staphylococcus chromogenes ATCC 43764GCA_017775145contigncbi46126
66792Staphylococcus chromogenes NCTC 10530GCA_002901945scaffoldncbi46126
66792Staphylococcus chromogenes strain ATCC 4376446126.206wgspatric46126
66792Staphylococcus chromogenes strain CCM 338746126.177wgspatric46126
66792Staphylococcus chromogenes strain NCTC 1053046126.27wgspatric46126
66792Staphylococcus chromogenes strain NCTC1053046126.119wgspatric46126

GC content

@refGC-content
882637.2
882633.9

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno92.295no
gram-positiveyes91.45no
anaerobicno99.124yes
aerobicyes91.357yes
halophileyes94.533no
spore-formingno89.806no
thermophileno99.593no
glucose-utilyes86.015no
motileno90.36no
glucose-fermentyes78.201yes

External links

@ref: 8826

culture collection no.: CCUG 4319, CIP 81.59, NRRL B-14759, DSM 20454, ATCC 43764, CCM 3387, NCTC 10530

straininfo link

  • @ref: 83648
  • straininfo: 92486

literature

topicPubmed-IDtitleauthorsjournalDOIyearmesh
Metabolism33767207Coagulase-negative staphylococci release a purine analog that inhibits Staphylococcus aureus virulence.Chin D, Goncheva MI, Flannagan RS, Deecker SR, Guariglia-Oropeza V, Ensminger AW, Heinrichs DENat Commun10.1038/s41467-021-22175-32021Animals, Bacterial Proteins/biosynthesis, Coagulase/deficiency, Female, Mice, Mice, Inbred BALB C, Purines/biosynthesis, Ribosomal Proteins/biosynthesis, Staphylococcal Skin Infections/*drug therapy, Staphylococcus/*genetics/*metabolism, Staphylococcus aureus/*growth & development/pathogenicity, Staphylococcus capitis/metabolism, Staphylococcus epidermidis/metabolism, Thioguanine/*metabolism/pharmacology, Trans-Activators/biosynthesis
Genetics34080903Draft Genome Sequence of Staphylococcus chromogenes ATCC 43764, a Coagulase-Negative Staphylococcus Strain with Antibacterial Potential.Chin D, Deecker SR, Ensminger AW, Heinrichs DEMicrobiol Resour Announc10.1128/MRA.00492-212021

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8826Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20454)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20454
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
37622Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/11222
44737Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 4319)https://www.ccug.se/strain?id=4319
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
83648Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92486.1StrainInfo: A central database for resolving microbial strain identifiers
118260Curators of the CIPCollection of Institut Pasteur (CIP 81.59)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2081.59