Strain identifier
BacDive ID: 14674
Type strain:
Species: Staphylococcus rostri
Strain history: <- V. Perreten, Univ. Berne, Switzerland <- A. Riesen {2008}
NCBI tax ID(s): 522262 (species)
General
@ref: 16068
BacDive-ID: 14674
DSM-Number: 21968
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, coccus-shaped
description: Staphylococcus rostri DSM 21968 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from nasal cavity of a healthy pig.
NCBI tax id
- NCBI tax id: 522262
- Matching level: species
strain history
- @ref: 16068
- history: <- V. Perreten, Univ. Berne, Switzerland <- A. Riesen {2008}
doi: 10.13145/bacdive14674.20230509.8.1
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 rostri
- full scientific name: Staphylococcus rostri Riesen and Perreten 2010
@ref: 16068
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Staphylococcaceae
genus: Staphylococcus
species: Staphylococcus rostri
full scientific name: Staphylococcus rostri Riesen and Perreten 2010
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell shape | motility | confidence |
---|---|---|---|---|---|
29405 | positive | 0.5-1.1 µm | coccus-shaped | no | |
69480 | positive | 100 |
pigmentation
- @ref: 29405
- production: yes
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
16068 | 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 |
16068 | 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 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
16068 | positive | growth | 37 | mesophilic |
29405 | positive | growth | 37-43 | |
29405 | positive | optimum | 37 | mesophilic |
61265 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
29405 | facultative anaerobe |
61265 | aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 92 |
69480 | no | 99.776 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
29405 | NaCl | positive | growth | 09-12 % |
29405 | NaCl | positive | optimum | 09-12 % |
observation
- @ref: 29405
- observation: aggregates in chains
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
29405 | 28757 | fructose | + | carbon source |
29405 | 17234 | glucose | + | carbon source |
29405 | 17992 | sucrose | + | carbon source |
29405 | 17632 | nitrate | + | 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 | 16024 | D-mannose | - | 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 |
68375 | 22599 | arabinose | - | fermentation |
antibiotic resistance
- @ref: 68375
- ChEBI: 28368
- metabolite: novobiocin
- is antibiotic: yes
- is sensitive: yes
- sensitivity conc.: 1.8 µg
metabolite production
- @ref: 68375
- Chebi-ID: 15688
- metabolite: acetoin
- production: yes
metabolite tests
- @ref: 68375
- Chebi-ID: 15688
- metabolite: acetoin
- voges-proskauer-test: +
enzymes
@ref | value | activity | ec |
---|---|---|---|
29405 | alkaline phosphatase | + | 3.1.3.1 |
29405 | catalase | + | 1.11.1.6 |
68375 | beta-glucuronidase | - | 3.2.1.31 |
68375 | pyrrolidonyl arylamidase | + | 3.4.19.3 |
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 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
16068 | - | + | - | + | + | + | - | - | + | + | - | - | - | - | + | + | - | - | + | + | - | + | + | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
16068 | nasal cavity of a healthy pig | Berne | Switzerland | CHE | Europe | |
61265 | Pig,nose,healthy animal (Edelschwein) | Bern | Switzerland | CHE | Europe | 2008-01-16 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Mammals | #Suidae (Pig,Swine) |
#Host Body-Site | #Organ | #Nose |
Safety information
risk assessment
- @ref: 16068
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16068
- description: Staphylococcus rostri partial 16S rRNA gene, type strain ARI 262T
- accession: FM242137
- length: 1413
- database: ena
- NCBI tax ID: 522262
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Staphylococcus rostri DSM 21968 | GCA_002902145 | scaffold | ncbi | 522262 |
66792 | Staphylococcus rostri strain DSM 21968 | 522262.5 | wgs | patric | 522262 |
66792 | Staphylococcus rostri DSM 21968 | 2917432201 | draft | img | 522262 |
GC content
@ref | GC-content | method |
---|---|---|
16068 | 38.8 | high performance liquid chromatography (HPLC) |
29405 | 38.8 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 92 | no |
flagellated | no | 93.749 | yes |
gram-positive | yes | 93.492 | yes |
anaerobic | no | 98.787 | yes |
halophile | yes | 94.281 | yes |
spore-forming | no | 88.022 | no |
glucose-util | yes | 87.092 | yes |
aerobic | yes | 91.187 | no |
thermophile | no | 99.529 | yes |
motile | no | 91.89 | no |
glucose-ferment | yes | 81.268 | yes |
External links
@ref: 16068
culture collection no.: DSM 21968, CCUG 57266, ARI 262
straininfo link
- @ref: 83800
- straininfo: 370643
literature
- topic: Phylogeny
- Pubmed-ID: 19819995
- title: Staphylococcus rostri sp. nov., a haemolytic bacterium isolated from the noses of healthy pigs.
- authors: Riesen A, Perreten V
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.012443-0
- year: 2009
- mesh: Animals, Bacterial Proteins/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Hemolysin Proteins/metabolism, Hemolysis, Molecular Sequence Data, Nose/*microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Staphylococcus/*classification/genetics/*isolation & purification/metabolism, Sus scrofa/*microbiology, Switzerland
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
16068 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21968) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21968 | |||
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 | |||
29405 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 25812 | 28776041 | |
61265 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 57266) | https://www.ccug.se/strain?id=57266 | |||
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 | |||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
83800 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID370643.1 | StrainInfo: A central database for resolving microbial strain identifiers |