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Strain identifier

BacDive ID: 11971

Type strain: Yes

Species: Planococcus koreensis

Strain Designation: JG-07

Strain history: <- JH Yoon, KRIBB

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

doi: 10.13145/bacdive11971.20230509.8

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

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)

culture temp

@refgrowthtypetemperaturerange
6173positivegrowth28mesophilic
33628positivegrowth30mesophilic
67770positivegrowth28mesophilic
67771positivegrowth20-30

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

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

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

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

isolation source categories

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

Safety information

risk assessment

  • @ref: 6173
  • biosafety level: 1
  • biosafety level comment: Risk group (German 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
66792Planomicrobium koreense 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-formingno97.759no
anaerobicno98.426yes
gram-positiveyes100no
spore-formingyes85no
thermophileno99.98yes
motileyes94.956no

External links

@ref: 6173

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

straininfo link

@refpassport
20218http://www.straininfo.net/strains/381509
20218http://www.straininfo.net/strains/315262
20218http://www.straininfo.net/strains/303444
20218http://www.straininfo.net/strains/303446

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/urltitlejournalpubmed
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
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
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)