Strain identifier
BacDive ID: 14506
Type strain:
Species: Staphylococcus capitis
Strain Designation: LK 499
Strain history: CIP <- 1981, J. Pillet, Inst. Pasteur, Garches, France <- ATCC <- W.E. Kloos: strain LK 499
NCBI tax ID(s): 29388 (species)
General
@ref: 8717
BacDive-ID: 14506
DSM-Number: 20326
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-positive, coccus-shaped, human pathogen
description: Staphylococcus capitis LK 499 is an obligate aerobe, mesophilic, Gram-positive human pathogen that was isolated from human skin.
NCBI tax id
- NCBI tax id: 29388
- Matching level: species
strain history
@ref | history |
---|---|
8717 | <- K.H. Schleifer <- W.E. Kloos, LK 499 |
117150 | CIP <- 1981, J. Pillet, Inst. Pasteur, Garches, France <- ATCC <- W.E. Kloos: strain LK 499 |
doi: 10.13145/bacdive14506.20230509.8.1
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
- full scientific name: Staphylococcus capitis Kloos and Schleifer 1975 (Approved Lists 1980)
@ref: 8717
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Staphylococcaceae
genus: Staphylococcus
species: Staphylococcus capitis subsp. capitis
full scientific name: Staphylococcus capitis subsp. capitis (Kloos and Schleifer 1975) Bannerman and Kloos 1991
strain designation: LK 499
type strain: yes
Morphology
cell morphology
- @ref: 117150
- gram stain: positive
- cell shape: coccus-shaped
- motility: no
colony morphology
@ref | type of hemolysis | hemolysis ability |
---|---|---|
8717 | beta | 1 |
117150 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8717 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
8717 | TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) | yes | https://mediadive.dsmz.de/medium/92 | Name: 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 |
37721 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) | |
117150 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 | |
117150 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8717 | positive | growth | 37 | mesophilic |
37721 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 117150
- oxygen tolerance: obligate aerobe
spore formation
- @ref: 117150
- spore formation: no
murein
- @ref: 8717
- murein short key: A11.03
- type: A3alpha L-Lys-Gly2-4-L-Ser1-2-Gly
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
117150 | 17632 | nitrate | + | reduction |
117150 | 16301 | nitrite | - | reduction |
68375 | 16199 | urea | - | hydrolysis |
68375 | 18257 | ornithine | - | degradation |
68375 | 4853 | esculin | - | hydrolysis |
68375 | 17634 | D-glucose | + | fermentation |
68375 | 15824 | D-fructose | + | fermentation |
68375 | 16024 | D-mannose | + | fermentation |
68375 | 17306 | maltose | - | fermentation |
68375 | 17716 | lactose | - | fermentation |
68375 | 27082 | trehalose | - | fermentation |
68375 | 16634 | raffinose | - | fermentation |
68375 | 16988 | D-ribose | - | fermentation |
68375 | 17057 | cellobiose | - | fermentation |
68375 | 17632 | nitrate | + | reduction |
68375 | 59640 | N-acetylglucosamine | - | fermentation |
68375 | 32528 | turanose | - | fermentation |
68375 | 22599 | arabinose | - | fermentation |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68375 | 15688 | acetoin | yes |
117150 | 35581 | indole | no |
metabolite tests
- @ref: 68375
- Chebi-ID: 15688
- metabolite: acetoin
- voges-proskauer-test: +
enzymes
@ref | value | activity | ec |
---|---|---|---|
8717 | catalase | + | 1.11.1.6 |
8717 | cytochrome-c oxidase | - | 1.9.3.1 |
68375 | beta-glucuronidase | - | 3.2.1.31 |
68375 | alkaline phosphatase | - | 3.1.3.1 |
68375 | L-arginine arylamidase | - | |
68375 | beta-galactosidase | - | 3.2.1.23 |
68375 | beta-glucosidase | - | 3.2.1.21 |
68375 | ornithine decarboxylase | - | 4.1.1.17 |
68375 | urease | - | 3.5.1.5 |
117150 | oxidase | - | |
117150 | alcohol dehydrogenase | + | 1.1.1.1 |
117150 | catalase | + | 1.11.1.6 |
117150 | lysine decarboxylase | - | 4.1.1.18 |
117150 | ornithine decarboxylase | - | 4.1.1.17 |
117150 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | - | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | - | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
117150 | - | - | + | + | - | - | - | - | - | - | + | + | - | - | - | - | - | - | - | - |
API ID32STA
@ref | URE | ADH Arg | ODC | ESC | GLU | FRU | MNE | MAL | LAC | TRE | MAN | RAF | RIB | CEL | NIT | VP | beta GAL | ArgA | PAL | PyrA | NOVO | SAC | NAG | TUR | ARA | beta GUR |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8717 | - | + | - | - | + | + | + | - | - | - | + | - | - | - | + | + | - | - | - | - | - | + | - | - | - | - |
8717 | - | + | - | - | + | + | + | - | - | - | + | - | - | - | + | + | - | - | - | - | + | + | - | - | - | - |
8717 | - | + | - | - | + | + | + | - | - | - | + | - | - | - | + | + | - | - | - | - | + | + | - | - | - | - |
8717 | - | - | - | - | + | + | + | - | - | - | +/- | - | - | - | + | + | - | - | - | - | - | - | - | - | - | - |
8717 | - | - | - | - | + | + | + | - | - | - | +/- | - | - | - | + | + | - | - | - | - | +/- | + | - | - | - | - |
8717 | - | + | - | - | + | + | + | - | - | - | + | - | - | - | + | + | - | - | - | + | + | + | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent |
---|---|---|---|---|
8717 | human skin | |||
44977 | Human skin | |||
117150 | Human, Healthy skin | United States of America | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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: L37599
- Sequence Identity:
- Total samples: 8633
- soil counts: 44
- aquatic counts: 284
- animal counts: 8287
- plant counts: 18
Safety information
risk assessment
@ref | pathogenicity human | biosafety level | biosafety level comment |
---|---|---|---|
8717 | yes, in single cases | 1 | Risk group (German classification) |
117150 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Staphylococcus capitis partial 16S rRNA gene, type strain ATCC 27840T | FN554713 | 1288 | ena | 29388 |
20218 | Staphylococcus capitis 16S ribosomal RNA (16S rRNA) gene | L37599 | 1469 | ena | 29388 |
20218 | S.capitis (capitis) gene for 16S ribosomal RNA | Z26940 | 771 | ena | 29388 |
20218 | Staphylococcus capitis subsp. capitis strain DSM 20326 16S ribosomal RNA gene, partial sequence | AY688038 | 464 | ena | 72758 |
8717 | Staphylococcus capitis subsp. capitis gene for 16S rRNA, partial sequence, strain: JCM 2420 | AB626127 | 1473 | ena | 72758 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Staphylococcus capitis NCTC11045 | GCA_901482635 | contig | ncbi | 29388 |
66792 | Staphylococcus capitis CCM 2734 | GCA_014635765 | contig | ncbi | 29388 |
66792 | Staphylococcus capitis subsp. capitis NCTC 11045 | GCA_002902325 | scaffold | ncbi | 72758 |
66792 | Staphylococcus capitis strain CCM 2734 | 29388.267 | wgs | patric | 29388 |
66792 | Staphylococcus capitis strain NCTC11045 | 29388.172 | wgs | patric | 29388 |
66792 | Staphylococcus capitis subsp. capitis strain NCTC 11045 | 72758.11 | wgs | patric | 72758 |
66792 | Staphylococcus capitis subsp. capitis DSM 20326 | GCA_025272975 | complete | ncbi | 72758 |
66792 | Staphylococcus capitis subsp. capitis strain DSM 20326 | 72758.23 | complete | patric | 72758 |
GC content
- @ref: 8717
- GC-content: 35.5
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 91.439 | no |
flagellated | no | 93.106 | no |
gram-positive | yes | 91.875 | no |
anaerobic | no | 99.359 | no |
aerobic | yes | 91.733 | no |
halophile | yes | 95.779 | no |
spore-forming | no | 92.128 | no |
glucose-ferment | yes | 83.683 | yes |
thermophile | no | 99.845 | yes |
glucose-util | yes | 90.682 | no |
External links
@ref: 8717
culture collection no.: DSM 20326, ATCC 27840, CCM 2734, CCUG 7326, NCTC 11045, CIP 81.53, JCM 2420, GIFU 9121
straininfo link
- @ref: 83643
- straininfo: 7695
literature
- topic: Metabolism
- Pubmed-ID: 7935060
- title: Immunological recognition of fibronectin-binding proteins of Staphylococcus aureus and Staphylococcus capitis, strain LK 499.
- authors: Sakata N, Rozalska B, Wadstrom T
- journal: Microbiol Immunol
- DOI: 10.1111/j.1348-0421.1994.tb01791.x
- year: 1994
- mesh: *Adhesins, Bacterial, Animals, Antibodies, Bacterial/*immunology, Antibodies, Monoclonal/immunology, Bacterial Outer Membrane Proteins/*immunology/metabolism, *Bacterial Proteins, *Carrier Proteins, Cross Reactions/immunology, Fibronectins/metabolism, Humans, Mice, Protein Binding, Rabbits, Recombinant Fusion Proteins/immunology, Staphylococcus aureus/classification/*immunology
- topic2: Pathogenicity
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8717 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20326) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20326 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
37721 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/11216 | ||||
44977 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 7326) | https://www.ccug.se/strain?id=7326 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
68375 | Automatically annotated from API ID32STA | |||||
68382 | Automatically annotated from API zym | |||||
69479 | João 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 | |||
83643 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID7695.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
117150 | Curators of the CIP | Collection of Institut Pasteur (CIP 81.53) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2081.53 |