Strain identifier
BacDive ID: 7640
Type strain:
Species: Kocuria rosea
Strain history: CIP <- 2000, ATCC, Pelczaria aurantia
NCBI tax ID(s): 1275 (species)
General
@ref: 4826
BacDive-ID: 7640
DSM-Number: 12801
keywords: genome sequence, Bacteria, obligate aerobe, psychrophilic
description: Kocuria rosea DSM 12801 is an obligate aerobe, psychrophilic bacterium that was isolated from goldfish aquarium.
NCBI tax id
- NCBI tax id: 1275
- Matching level: species
strain history
@ref | history |
---|---|
4826 | <- ATCC <- J. M. Poston (Pelczaria aurantia) |
33003 | 2000, ATCC, Pelczaria aurantia |
67770 | IAM 14819 <-- ATCC 49321 <-- J. M. Poston. |
122252 | CIP <- 2000, ATCC, Pelczaria aurantia |
doi: 10.13145/bacdive7640.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Micrococcaceae
- genus: Kocuria
- species: Kocuria rosea
- full scientific name: Kocuria rosea (Flügge 1886) Stackebrandt et al. 1995
synonyms
@ref synonym 20215 Kocuria erythromyxa 20215 Deinococcus erythromyxa 20215 Micrococcus roseus 20215 Pelczaria aurantia
@ref: 4826
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Micrococcaceae
genus: Kocuria
species: Kocuria rosea
full scientific name: Kocuria rosea (Flügge 1886) Stackebrandt et al. 1995
type strain: no
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | no | 95.465 | ||
69480 | 100 | positive | ||
122252 | no | positive | coccus-shaped |
colony morphology
- @ref: 122252
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
4826 | LB (Luria-Bertani) MEDIUM (DSMZ Medium 381) | yes | https://mediadive.dsmz.de/medium/381 | Name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381) Composition: Agar 20.0 g/l NaCl 10.0 g/l Tryptone 10.0 g/l Yeast extract 5.0 g/l Distilled water |
4826 | BHI MEDIUM (DSMZ Medium 215) | yes | https://mediadive.dsmz.de/medium/215 | Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water |
33003 | MEDIUM 29- Brain heart agar | yes | Distilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g) | |
122252 | CIP Medium 29 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29 | |
122252 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
4826 | positive | growth | 22 | psychrophilic |
33003 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
122252 | positive | growth | 22-37 | |
122252 | no | growth | 10 | psychrophilic |
122252 | no | growth | 41 | thermophilic |
122252 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 122252
- oxygen tolerance: obligate aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 92 |
69480 | no | 99.992 |
observation
- @ref: 67770
- observation: quinones: MK-8(H2), MK-9(H2)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
122252 | 606565 | hippurate | + | hydrolysis |
122252 | 17632 | nitrate | + | reduction |
122252 | 16301 | nitrite | - | reduction |
metabolite production
- @ref: 122252
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 122252
- Chebi-ID: 15688
- metabolite: acetoin
- voges-proskauer-test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | - | 3.1.3.1 |
122252 | oxidase | + | |
122252 | beta-galactosidase | - | 3.2.1.23 |
122252 | alcohol dehydrogenase | - | 1.1.1.1 |
122252 | gelatinase | - | |
122252 | amylase | + | |
122252 | DNase | - | |
122252 | caseinase | - | 3.4.21.50 |
122252 | catalase | + | 1.11.1.6 |
122252 | coagulase | - | |
122252 | tween esterase | - | |
122252 | gamma-glutamyltransferase | + | 2.3.2.2 |
122252 | lecithinase | - | |
122252 | lipase | - | |
122252 | lysine decarboxylase | - | 4.1.1.18 |
122252 | ornithine decarboxylase | - | 4.1.1.17 |
122252 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
122252 | urease | - | 3.5.1.5 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122252 | - | - | + | + | - | + | - | - | - | - | + | + | - | - | - | + | + | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122252 | + | + | + | + | + | - | - | + | - | + | + | - | - | - | - | - | - | - | + | - | + | + | - | + | - | - | - | - | - | - | - | + | + | + | - | + | - | - | - | - | - | - | - | - | - | + | + | - | + | + | - | - | - | - | - | - | - | + | - | - | + | + | + | + | + | - | + | + | + | + | - | - | + | - | - | + | - | - | + | + | + | - | + | - | - | - | - | - | + | - | + | - | - | + | - | - | - | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | geographic location |
---|---|---|---|---|---|
4826 | goldfish aquarium | USA | USA | North America | |
67770 | Goldfish aquarium | USA | USA | North America | Bethesda, MD |
122252 | Goldfish aquarium | United States of America | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Built environment | #Water reservoir (Aquarium/pool) |
#Host | #Fishes |
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
4826 | 1 | Risk group (German classification) |
122252 | 1 | Risk group (French classification) |
Sequence information
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Kocuria rosea strain ATCC 49321 | 1275.7 | wgs | patric | 1275 |
67770 | Kocuria rosea ATCC 49321 | GCA_003124025 | contig | ncbi | 1275 |
GC content
@ref | GC-content | method |
---|---|---|
4826 | 60 | thermal denaturation, midpoint method (Tm) |
4826 | 59 | high performance liquid chromatography (HPLC) |
67770 | 72 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 92 | no |
motile | no | 92.256 | no |
gram-positive | yes | 95.011 | no |
anaerobic | no | 99.493 | no |
aerobic | yes | 95.289 | no |
halophile | yes | 53.865 | no |
spore-forming | no | 92.035 | no |
thermophile | no | 98.579 | yes |
glucose-util | yes | 89.048 | no |
flagellated | no | 97.832 | no |
glucose-ferment | no | 81.314 | no |
External links
@ref: 4826
culture collection no.: DSM 12801, ATCC 49321, JCM 21325, CIP 106741, IAM 14819, IFO 15588, NBRC 15588
straininfo link
- @ref: 77084
- straininfo: 42420
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh |
---|---|---|---|---|---|---|---|
Phylogeny | 10939645 | Pelczaria aurantia ATCC 49321T (=DSM 12801T) is a strain of Kocuria rosea (Flugge 1886) Stackebrandt et al. 1995. | Schumann P, Tindall BJ, Mendrock U, Kramer I, Stackebrandt E | Int J Syst Evol Microbiol | 10.1099/00207713-50-4-1421 | 2000 | DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Micrococcus/chemistry/*classification/genetics, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/analysis, RNA, Ribosomal, 16S/analysis |
Phylogeny | 10939680 | The status of the genus Pelczaria (Poston 1994) and the species Pelczaria aurantia (Poston 1994). Request for an Opinion. | Tindall BJ, Schumann P, Stackebrandt E | Int J Syst Evol Microbiol | 10.1099/00207713-50-4-1695 | 2000 | Bacteria/*classification, Phylogeny |
Genetics | 29930075 | Genome Sequences for Three Strains of Kocuria rosea, Including the Type Strain. | Trachtenberg AM, Goen AE, MacLea KS | Genome Announc | 10.1128/genomeA.00594-18 | 2018 |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
4826 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12801) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12801 | |
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 | |
33003 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/18905 | ||
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/ | ||
68382 | Automatically annotated from API zym | |||
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 | |
77084 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID42420.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
122252 | Curators of the CIP | Collection of Institut Pasteur (CIP 106741) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106741 |