Strain identifier
BacDive ID: 159066
Type strain: 
Species: Staphylococcus debuckii
Strain history: <- S. Naushad, Univ. Calgary, Canada; SDB 2975
NCBI tax ID(s): 2044912 (species)
version 7.1 (current version)
General
@ref: 65889
BacDive-ID: 159066
DSM-Number: 105892
keywords: 16S sequence, Bacteria, mesophilic, Gram-positive, coccus-shaped, colony-forming
description: Staphylococcus debuckii DSM 105892 is a mesophilic, Gram-positive, coccus-shaped bacterium that forms circular colonies and was isolated from bovine milk.
NCBI tax id
- NCBI tax id: 2044912
- Matching level: species
strain history: <- S. Naushad, Univ. Calgary, Canada; SDB 2975
doi: 10.13145/bacdive159066.20221219.7.1
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 debuckii
- full scientific name: Staphylococcus debuckii Naushad et al. 2019
@ref: 65889
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Caryophanales
family: Staphylococcaceae
genus: Staphylococcus
species: Staphylococcus debuckii
full scientific name: Staphylococcus debuckii Naushad et al. 2019
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell shape | motility | confidence |
|---|---|---|---|---|
| 67898 | positive | coccus-shaped | no | |
| 69480 | positive | 96.84 |
colony morphology
- @ref: 67898
- colony size: 1-2 mm
- colony color: white
- colony shape: circular
- incubation period: 1 days
- medium used: 5 % defibrinted sheep blood agar
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 65889 | 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 |
| 65889 | 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 |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 65889 | positive | growth | 37 | mesophilic |
| 67898 | no | growth | 45 | thermophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 67898 | no | |
| 69480 | no | 95.081 |
halophily
| @ref | salt | growth | tested relation | concentration | halophily level | confidence |
|---|---|---|---|---|---|---|
| 67898 | NaCl | no | growth | 15 % | ||
| 67898 | NaCl | positive | growth | 0-10 % | ||
| 69480 | halophilic | 97.857 |
observation
| @ref | observation |
|---|---|
| 67898 | Cells appear mostly in pairs or small clusters. |
| 67898 | Strains are haemolytic. |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 67898 | 17632 | nitrate | + | reduction |
| 67898 | 16199 | urea | + | assimilation |
| 67898 | 16467 | L-arginine | + | assimilation |
| 67898 | 50144 | sodium pyruvate | + | assimilation |
| 67898 | 320061 | methyl alpha-D-glucopyranoside | - | assimilation |
| 67898 | 59640 | N-acetylglucosamine | - | assimilation |
| 67898 | 65327 | D-xylose | + | builds acid from |
| 67898 | 17634 | D-glucose | + | builds acid from |
| 67898 | 17306 | maltose | + | builds acid from |
| 67898 | 27082 | trehalose | + | builds acid from |
| 67898 | 15824 | D-fructose | + | builds acid from |
| 67898 | 17992 | sucrose | + | builds acid from |
| 67898 | 28053 | melibiose | + | builds acid from |
| 67898 | 16024 | D-mannose | + | builds acid from |
| 67898 | 17716 | lactose | + | builds acid from |
| 67898 | 16899 | D-mannitol | + | builds acid from |
| 67898 | 16634 | raffinose | + | builds acid from |
| 67898 | 17151 | xylitol | + | builds acid from |
antibiotic resistance
- @ref: 67898
- ChEBI: 28368
- metabolite: novobiocin
- is antibiotic: yes
- is sensitive: yes
- sensitivity conc.: 1.6 µg/mL
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 67898 | catalase | + | 1.11.1.6 |
| 67898 | alkaline phosphatase | + | 3.1.3.1 |
| 67898 | cytochrome oxidase | - | 1.9.3.1 |
| 67898 | DNase | - |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 65889 | bovine milk | Quebec | Canada | CAN | North America |
| 67898 | milk of the right fore quarter of an eighth lactation cow at 35 days-in-milk housed | tie-stall herd in Québec | Canada | CAN | North America |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Mammals | #Bovinae (Cow, Cattle) |
| #Host Body Product | #Fluids | #Milk |
taxonmaps
- @ref: 69479
- File name: preview.99_1206.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3;97_3;98_955;99_1206&stattab=map
- Last taxonomy: Staphylococcus
- 16S sequence: MK121623
- Sequence Identity:
- Total samples: 22504
- soil counts: 1443
- aquatic counts: 1299
- animal counts: 19130
- plant counts: 632
Sequence information
16S sequences
- @ref: 65889
- description: Staphylococcus sp. SDB 2975 16S ribosomal RNA gene, partial sequence
- accession: MK121623
- length: 1540
- database: ena
- NCBI tax ID: 2044912
GC content
- @ref: 67898
- GC-content: 36.6
- method: genome sequence analysis
External links
@ref: 65889
culture collection no.: DSM 105892, SDB 2975, CECT 9737
literature
- topic: Phylogeny
- Pubmed-ID: 31135334
- title: Staphylococcus debuckii sp. nov., a coagulase-negative species from bovine milk.
- authors: Naushad S, Kanevets U, Nobrega D, Carson D, Dufour S, Roy JP, Lewis PJ, Barkema HW
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.003457
- year: 2019
- mesh: Animals, Bacterial Typing Techniques, Base Composition, Cattle/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Milk/*microbiology, Nucleic Acid Hybridization, *Phylogeny, Quebec, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Staphylococcus/*classification/isolation & purification
- topic2: Transcriptome
Reference
| @id | authors | title | doi/url | catalogue | journal |
|---|---|---|---|---|---|
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | ||
| 65889 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-105892 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105892) | ||
| 67898 | Sohail Naushad, Uliana Kanevets, Diego Nobrega, Domonique Carson, Simon Dufour, Jean-Philippe Roy, P. Jeffrey Lewis, Herman W. Barkema | Staphylococcus debuckii sp. nov., a coagulase-negative species from bovine milk | 10.1099/ijsem.0.003457 | IJSEM 69: 2239-2249 2019 | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | ||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes |