Strain identifier

BacDive ID: 11971

Type strain: Yes

Species: Planococcus koreensis

Strain Designation: JG-07

Strain history: CIP <- 2001, JCM <- J. H. Yoon, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Taejon, South Korea: strain JG-07

NCBI tax ID(s): 112331 (species)

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General

@ref: 6173

BacDive-ID: 11971

DSM-Number: 15895

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, rod-shaped

description: Planococcus koreensis JG-07 is an aerobe, mesophilic, rod-shaped bacterium that was isolated from jeotgal .

NCBI tax id

  • NCBI tax id: 112331
  • Matching level: species

strain history

@refhistory
6173<- JCM <- J.-H. Yoon; JG-07
67770J.-H. Yoon JG-07.
67771<- JH Yoon, KRIBB
120469CIP <- 2001, JCM <- J. H. Yoon, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Taejon, South Korea: strain JG-07

doi: 10.13145/bacdive11971.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Caryophanaceae
  • genus: Planococcus
  • species: Planococcus koreensis
  • full scientific name: Planococcus koreensis (Yoon et al. 2001) Gupta and Patel 2020

  • synonyms

    • @ref: 20215
    • synonym: Planomicrobium koreense

@ref: 6173

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Caryophanaceae

genus: Planococcus

species: Planococcus koreensis

full scientific name: Planococcus koreensis (Yoon et al. 2001) Gupta and Patel 2020

strain designation: JG-07

type strain: yes

Morphology

cell morphology

@refcell shapegram stainmotilityconfidence
67771rod-shaped
67771coccus-shaped
67771variable
69480yes94.956
69480positive100
120469rod-shapednegativeyes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6173BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
33628Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
120469CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
6173positivegrowth28mesophilic
33628positivegrowth30mesophilic
67770positivegrowth28mesophilic
67771positivegrowth20-30
120469positivegrowth10-41
120469nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
67771aerobe
120469facultative anaerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 97.759

halophily

@refsaltgrowthtested relationconcentration
120469NaClpositivegrowth0-4 %
120469NaClnogrowth6 %
120469NaClnogrowth8 %
120469NaClnogrowth10 %

murein

  • @ref: 6173
  • murein short key: A11.33
  • type: A4alpha L-Lys-D-Glu

observation

@refobservation
67770quinones: MK-8, MK-7, MK-6
67771quinones: MK-8, MK-7, MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
120469606565hippurate-hydrolysis
12046917632nitrate+reduction
12046916301nitrite-reduction

metabolite production

  • @ref: 120469
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 120469
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: +

enzymes

@refvalueactivityec
120469oxidase+
120469beta-galactosidase+3.2.1.23
120469alcohol dehydrogenase-1.1.1.1
120469gelatinase+
120469amylase-
120469caseinase+3.4.21.50
120469catalase+1.11.1.6
120469tween esterase-
120469gamma-glutamyltransferase-2.3.2.2
120469lecithinase-
120469lipase-
120469lysine decarboxylase-4.1.1.18
120469ornithine decarboxylase-4.1.1.17
120469phenylalanine ammonia-lyase-4.3.1.24
120469tryptophan deaminase-
120469urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase+3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120469-++--+++++-----+----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120469++---------++------------------+-----------+------------------+--+--------------------+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6173jeotgal (korean traditional fermented seafood)KoreaRepublic of KoreaKORAsia
67770Jeotgal, Korean traditional fermented seafoodRepublic of KoreaKORAsia
67771From Jeotgal, Korean traditional fermented seafoodRepublic of KoreaKORAsia
120469Food, Jeotgal, korean traditional fermented seafoodRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Seafood
#Engineered#Food production#Fermented

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
61731Risk group (German classification)
1204691Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6173
  • description: Planococcus sp. JG07 16S ribosomal RNA gene, partial sequence
  • accession: AF144750
  • length: 1506
  • database: ena
  • NCBI tax ID: 112331

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Planococcus koreensis DSM 15895GCA_014202615contigncbi112331
66792Planomicrobium koreense strain DSM 15895112331.4wgspatric112331
66792Planomicrobium koreense DSM 158952861582252draftimg112331

GC content

@refGC-contentmethod
617347
6777047high performance liquid chromatography (HPLC)
6777147.0high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes85no
motileyes76.005no
flagellatedyes59.785no
gram-positiveyes86.869yes
anaerobicno99.009yes
halophileyes74.072no
spore-formingno53.918no
thermophileno99.351no
glucose-utilyes90.58no
aerobicyes95.054yes
glucose-fermentno88.218no

External links

@ref: 6173

culture collection no.: DSM 15895, CIP 107134, JCM 10704, KCTC 3684, CGMCC 1.3646, KCTC 3684.

straininfo link

@refstraininfo
81182100866
81183312120

literature

  • topic: Phylogeny
  • Pubmed-ID: 24854007
  • title: Planomicrobium soli sp. nov., isolated from soil.
  • authors: Luo X, Zhang J, Li D, Xin Y, Xin D, Fan L
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.055426-0
  • year: 2014
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Pigmentation, Planococcaceae/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
6173Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15895)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15895
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
33628Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4536
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/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68382Automatically annotated from API zym
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
81182Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100866.1StrainInfo: A central database for resolving microbial strain identifiers
81183Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID312120.1StrainInfo: A central database for resolving microbial strain identifiers
120469Curators of the CIPCollection of Institut Pasteur (CIP 107134)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107134