Strain identifier

BacDive ID: 7640

Type strain: No

Species: Kocuria rosea

Strain history: CIP <- 2000, ATCC, Pelczaria aurantia

NCBI tax ID(s): 1275 (species)

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General

@ref: 4826

BacDive-ID: 7640

DSM-Number: 12801

keywords: genome sequence, Bacteria, obligate aerobe, psychrophilic, Gram-positive, coccus-shaped

description: Kocuria rosea DSM 12801 is an obligate aerobe, psychrophilic, Gram-positive bacterium that was isolated from goldfish aquarium.

NCBI tax id

  • NCBI tax id: 1275
  • Matching level: species

strain history

@refhistory
4826<- ATCC <- J. M. Poston (Pelczaria aurantia)
330032000, ATCC, Pelczaria aurantia
67770IAM 14819 <-- ATCC 49321 <-- J. M. Poston.
122252CIP <- 2000, ATCC, Pelczaria aurantia

doi: 10.13145/bacdive7640.20250331.9.3

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

    @refsynonym
    20215Pelczaria aurantia
    20215Kocuria erythromyxa
    20215Deinococcus erythromyxa
    20215Micrococcus roseus

@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

@refgram staincell shapemotilityconfidence
122252positivecoccus-shapedno
125439positive97.2
125438no92.167
125438positive93.592

colony morphology

  • @ref: 122252

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4826LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)yeshttps://mediadive.dsmz.de/medium/381Name: 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
4826BHI MEDIUM (DSMZ Medium 215)yeshttps://mediadive.dsmz.de/medium/215Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
33003MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
122252CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29
122252CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperature
4826positivegrowth22
33003positivegrowth30
67770positivegrowth28
122252positivegrowth22-37
122252nogrowth10
122252nogrowth41
122252nogrowth45

Physiology and metabolism

oxygen tolerance

  • @ref: 122252
  • oxygen tolerance: obligate aerobe

observation

  • @ref: 67770
  • observation: quinones: MK-8(H2), MK-9(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
122252606565hippurate+hydrolysis
12225217632nitrate+reduction
12225216301nitrite-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

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
122252oxidase+
122252beta-galactosidase-3.2.1.23
122252alcohol dehydrogenase-1.1.1.1
122252gelatinase-
122252amylase+
122252DNase-
122252caseinase-3.4.21.50
122252catalase+1.11.1.6
122252coagulase-
122252tween esterase-
122252gamma-glutamyltransferase+2.3.2.2
122252lecithinase-
122252lipase-
122252lysine decarboxylase-4.1.1.18
122252ornithine decarboxylase-4.1.1.17
122252phenylalanine ammonia-lyase-4.3.1.24
122252urease-3.5.1.5
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122252--++-+----++---++---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122252+++++--+-++-------+-++-+-------+++-+---------++-++-------+--+++++-++++--+--+--+++-+-----+-+--+---++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
4826goldfish aquariumUSAUSANorth America
67770Goldfish aquariumUSAUSANorth AmericaBethesda, MD
122252Goldfish aquariumUnited States of AmericaUSANorth America

isolation source categories

Cat1Cat2Cat3
#Engineered#Built environment#Water reservoir (Aquarium/pool)
#Host#Fishes

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
48261Risk group (German classification)
1222521Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Kocuria rosea strain ATCC 493211275.7wgspatric1275
67770Kocuria rosea ATCC 49321GCA_003124025contigncbi1275

GC content

@refGC-contentmethod
482660thermal denaturation, midpoint method (Tm)
482659high performance liquid chromatography (HPLC)
6777072high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes93.592no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no97.43no
125438spore-formingspore-formingAbility to form endo- or exosporesno69.506no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes85.992yes
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno96.111yes
125438motile2+flagellatedAbility to perform flagellated movementno92.167no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno56.4
125439BacteriaNetmotilityAbility to perform movementno68.9
125439BacteriaNetgram_stainReaction to gram-stainingpositive97.2
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthfacultative anaerobe84.4

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

topicPubmed-IDtitleauthorsjournalDOIyearmesh
Phylogeny10939645Pelczaria 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 EInt J Syst Evol Microbiol10.1099/00207713-50-4-14212000DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Micrococcus/chemistry/*classification/genetics, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/analysis, RNA, Ribosomal, 16S/analysis
Phylogeny10939680The status of the genus Pelczaria (Poston 1994) and the species Pelczaria aurantia (Poston 1994). Request for an Opinion.Tindall BJ, Schumann P, Stackebrandt EInt J Syst Evol Microbiol10.1099/00207713-50-4-16952000Bacteria/*classification, Phylogeny
Genetics29930075Genome Sequences for Three Strains of Kocuria rosea, Including the Type Strain.Trachtenberg AM, Goen AE, MacLea KSGenome Announc10.1128/genomeA.00594-182018

Reference

@idauthorscataloguedoi/urltitle
4826Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12801)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12801
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
33003Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18905
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
77084Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID42420.1StrainInfo: A central database for resolving microbial strain identifiers
122252Curators of the CIPCollection of Institut Pasteur (CIP 106741)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106741
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1