Strain identifier
BacDive ID: 14599
Type strain:
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)
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
@ref | history |
---|---|
8675 | <- K.H. Schleifer <- W.E. Kloos, KL 162 |
67770 | Y. Kosako <-- R. Sakazaki <-- ATCC 29971 <-- W. E. Kloos KL 162. |
124005 | CIP <- 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
@ref | type of hemolysis | incubation period |
---|---|---|
8675 | gamma | 1-2 days |
124005 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8675 | 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 |
8675 | 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 |
37623 | MEDIUM 29- Brain heart agar | yes | Distilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g) | |
124005 | CIP Medium 29 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8675 | positive | growth | 37 | mesophilic |
37623 | positive | growth | 37 | mesophilic |
44975 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
124005 | positive | growth | 22-41 | |
124005 | no | growth | 10 | psychrophilic |
124005 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
44975 | aerobe |
124005 | facultative anaerobe |
murein
- @ref: 8675
- murein short key: A11.02
- type: A3alpha L-Lys-Gly5-6
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
124005 | 606565 | hippurate | + | hydrolysis |
124005 | 17632 | nitrate | - | builds gas from |
124005 | 17632 | nitrate | + | reduction |
124005 | 16301 | nitrite | + | reduction |
68375 | 16199 | urea | + | hydrolysis |
68375 | 29016 | arginine | - | hydrolysis |
68375 | 18257 | ornithine | - | degradation |
68375 | 4853 | esculin | - | hydrolysis |
68375 | 17634 | D-glucose | + | fermentation |
68375 | 15824 | D-fructose | + | fermentation |
68375 | 17306 | maltose | + | fermentation |
68375 | 17716 | lactose | + | fermentation |
68375 | 27082 | trehalose | + | fermentation |
68375 | 16899 | D-mannitol | + | fermentation |
68375 | 16634 | raffinose | - | fermentation |
68375 | 16988 | D-ribose | - | fermentation |
68375 | 17057 | cellobiose | - | fermentation |
68375 | 17632 | nitrate | + | reduction |
68375 | 17992 | sucrose | + | fermentation |
68375 | 59640 | N-acetylglucosamine | + | fermentation |
68375 | 32528 | turanose | - | fermentation |
antibiotic resistance
- @ref: 68375
- ChEBI: 28368
- metabolite: novobiocin
- is antibiotic: yes
- is resistant: yes
- resistance conc.: 1.8 µg
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68375 | 15688 | acetoin | no |
124005 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
68375 | 15688 | acetoin | - | |
124005 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
8675 | catalase | + | 1.11.1.6 |
8675 | 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 | arginine dihydrolase | - | 3.5.3.6 |
68375 | urease | + | 3.5.1.5 |
124005 | oxidase | - | |
124005 | beta-galactosidase | + | 3.2.1.23 |
124005 | alcohol dehydrogenase | - | 1.1.1.1 |
124005 | amylase | - | |
124005 | DNase | - | |
124005 | coagulase | - | |
124005 | tween esterase | - | |
124005 | gamma-glutamyltransferase | - | 2.3.2.2 |
124005 | lecithinase | - | |
124005 | lipase | - | |
124005 | lysine decarboxylase | - | 4.1.1.18 |
124005 | ornithine decarboxylase | - | 4.1.1.17 |
124005 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
124005 | protease | - | |
124005 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
124005 | - | + | + | + | - | - | - | - | - | - | + | - | - | + | + | + | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8675 | + | - | - | - | + | + | + | + | + | + | + | - | - | - | + | - | + | - | + | + | + | + | + | - | +/- | + |
8675 | + | - | - | - | + | + | + | + | + | + | + | - | - | - | + | - | + | - | + | + | + | + | + | - | + | + |
8675 | + | - | - | - | + | + | + | + | + | + | + | - | - | - | + | - | + | - | + | + | + | + | + | - | + | + |
8675 | + | - | - | - | + | + | - | + | + | + | + | - | - | - | + | - | + | - | + | +/- | + | + | + | - | +/- | + |
8675 | + | - | - | - | + | + | + | + | + | + | + | - | - | - | + | - | + | - | + | +/- | + | + | + | - | +/- | + |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
124005 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
8675 | human skin |
44975 | Human skin |
67770 | Human skin |
124005 | Human, Skin |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | pathogenicity human | pathogenicity animal | biosafety level | biosafety level comment |
---|---|---|---|---|
8675 | yes, in single cases | yes, in single cases | 1 | Risk group (German classification) |
124005 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Staphylococcus xylosus partial 16S rRNA gene, isolate OS-69.a | AM237368 | 1456 | ena | 1288 |
20218 | Staphylococcus xylosus gene for 16S rRNA, partial sequence, strain: ATCC 29971 (= MAFF 911482) | D83374 | 1477 | ena | 1288 |
20218 | Staphylococcus xylosus strain ATCC 29971 16S ribosomal RNA gene, partial sequence | FJ971865 | 804 | ena | 1288 |
20218 | Staphylococcus xylosus 16S ribosomal RNA gene, partial sequence | AF041357 | 924 | ena | 1288 |
20218 | Staphylococcus xylosus strain DSM20266T 16S ribosomal RNA gene, partial sequence | AY126246 | 512 | ena | 1288 |
20218 | Staphylococcus xylosus strain DSM 20266 16S ribosomal RNA gene, partial sequence | AY688107 | 464 | ena | 1288 |
20218 | S.xylosus gene for 16S ribosomal RNA | Z26900 | 771 | ena | 1288 |
20218 | Staphylococcus xylosus gene for 16S rRNA, partial sequence, strain: JCM 2418 | AB626129 | 1475 | ena | 1288 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Staphylococcus xylosus Staphylococcus xylosus ATCC 29971 | GCA_900240095 | chromosome | ncbi | 1288 |
66792 | Staphylococcus xylosus strain CCM 2738 | 1288.120 | wgs | patric | 1288 |
66792 | Staphylococcus xylosus strain NBRC 109770 | 1288.190 | wgs | patric | 1288 |
66792 | Staphylococcus xylosus strain NCTC 11043 | 1288.129 | wgs | patric | 1288 |
66792 | Staphylococcus xylosus strain NCTC11043 | 1288.169 | wgs | patric | 1288 |
66792 | Staphylococcus xylosus strain Staphylococcus xylosus ATCC 29971 | 1288.130 | complete | patric | 1288 |
67770 | Staphylococcus xylosus CCM 2738 | GCA_002732165 | contig | ncbi | 1288 |
67770 | Staphylococcus xylosus NCTC 11043 | GCA_002901985 | scaffold | ncbi | 1288 |
67770 | Staphylococcus xylosus NCTC11043 | GCA_900458755 | contig | ncbi | 1288 |
66792 | Staphylococcus xylosus NBRC 109770 | GCA_007992815 | contig | ncbi | 1288 |
GC content
@ref | GC-content | method |
---|---|---|
8675 | 36.2 | |
67770 | 34.2 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 89.64 | no |
gram-positive | yes | 91.13 | no |
anaerobic | no | 99.177 | yes |
aerobic | yes | 91.754 | yes |
halophile | yes | 95.723 | no |
spore-forming | no | 91.294 | no |
thermophile | no | 99.858 | no |
glucose-util | yes | 89.703 | no |
flagellated | no | 89.884 | no |
glucose-ferment | yes | 83.835 | yes |
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
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Enzymology | 6477033 | Structure and biosynthesis of teichoic acids in the cell walls of Staphylococcus xylosus DSM 20266. | Fiedler F, Steber J | Arch Microbiol | 10.1007/BF00410898 | 1984 | Cell Fractionation, Cell Membrane/ultrastructure, Cell Wall/ultrastructure, Kinetics, Nucleoside Diphosphate Sugars/metabolism, Staphylococcus/*metabolism, Teichoic Acids/*biosynthesis/isolation & purification | Metabolism |
Enzymology | 11849340 | Monitoring 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 R | J Appl Microbiol | 10.1046/j.1365-2672.2002.01512.x | 2002 | Animals, Bacterial Typing Techniques, Electrophoresis, Gel, Pulsed-Field, Fermentation, Food Handling/*methods, Meat Products/*microbiology, *Random Amplified Polymorphic DNA Technique, Staphylococcus/*classification/genetics/isolation & purification, Swine | Phylogeny |
Phylogeny | 14657137 | Staphylococcus nepalensis sp. nov., isolated from goats of the Himalayan region. | Spergser J, Wieser M, Taubel M, Rossello-Mora RA, Rosengarten R, Busse HJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.02646-0 | 2003 | Altitude, Animals, DNA Fingerprinting, Geography, Goats/*microbiology, India, Microbial Sensitivity Tests, Molecular Sequence Data, *Phylogeny, Polymerase Chain Reaction, Staphylococcus/*classification/genetics/isolation & purification/physiology | Genetics |
Proteome | 30319582 | Proteome 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 L | Front Microbiol | 10.3389/fmicb.2018.02275 | 2018 | ||
34828853 | Contribution 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 H | Foods | 10.3390/foods10112572 | 2021 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8675 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20266) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20266 | |||
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 | |
37623 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/11230 | ||||
44975 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 7324) | https://www.ccug.se/strain?id=7324 | |||
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) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
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 | |||
83729 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID39815.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
124005 | Curators of the CIP | Collection of Institut Pasteur (CIP 81.66) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2081.66 |