Strain identifier

BacDive ID: 11964

Type strain: Yes

Species: Planococcus maritimus

Strain Designation: TF-9

Strain history: CIP <- 2003, JCM <- 2002, KRIBB: strain TF-9

NCBI tax ID(s): 192421 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 6867

BacDive-ID: 11964

DSM-Number: 17275

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile

description: Planococcus maritimus TF-9 is a mesophilic, motile bacterium that was isolated from seawater.

NCBI tax id

  • NCBI tax id: 192421
  • Matching level: species

strain history

@refhistory
6867<- JCM <- Y.-H.Park, TF-9
67770Y.-H. Park TF-9.
120838CIP <- 2003, JCM <- 2002, KRIBB: strain TF-9

doi: 10.13145/bacdive11964.20230509.8.1

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 maritimus
  • full scientific name: Planococcus maritimus Yoon et al. 2003

@ref: 6867

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Caryophanaceae

genus: Planococcus

species: Planococcus maritimus

full scientific name: Planococcus maritimus Yoon et al. 2003 emend. Ivanova et al. 2006

strain designation: TF-9

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes94.693
69480100positive
120838nopositivecoccus-shaped

colony morphology

  • @ref: 120838
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6867BACTO 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
33213Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
120838CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13
120838CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
6867positivegrowth28mesophilic
33213positivegrowth30mesophilic
67770positivegrowth28mesophilic
120838positivegrowth10-30
120838nogrowth37mesophilic
120838nogrowth41thermophilic
120838nogrowth45thermophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 98.806

halophily

@refsaltgrowthtested relationconcentration
120838NaClpositivegrowth4-10 %
120838NaClnogrowth0 %
120838NaClnogrowth2 %

observation

  • @ref: 67770
  • observation: quinones: MK-8, MK-7, MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
120838606565hippurate+hydrolysis
12083817632nitrate+reduction
12083816301nitrite-reduction

metabolite production

  • @ref: 120838
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 120838
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
120838oxidase-
120838beta-galactosidase+3.2.1.23
120838alcohol dehydrogenase-1.1.1.1
120838gelatinase+/-
120838amylase-
120838DNase-
120838caseinase+3.4.21.50
120838catalase+1.11.1.6
120838tween esterase-
120838gamma-glutamyltransferase-2.3.2.2
120838lecithinase-
120838lipase-
120838lysine decarboxylase-4.1.1.18
120838ornithine decarboxylase-4.1.1.17
120838phenylalanine ammonia-lyase-4.3.1.24
120838tryptophan deaminase-
120838urease-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
120838---+----------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6867seawaterYellow SeaRepublic of KoreaKORAsia
67770Seawater of a tidal flat of the Yellow SeaRepublic of KoreaKORAsia
120838Environment, Sea water

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_129.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_67;97_70;98_75;99_129&stattab=map
  • Last taxonomy: Planococcus
  • 16S sequence: AF500007
  • Sequence Identity:
  • Total samples: 12884
  • soil counts: 6586
  • aquatic counts: 2240
  • animal counts: 2949
  • plant counts: 1109

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
68671Risk group (German classification)
1208381Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6867
  • description: Planococcus maritimus strain TF-9 16S ribosomal RNA gene, partial sequence
  • accession: AF500007
  • length: 1507
  • database: ena
  • NCBI tax ID: 192421

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Planococcus maritimus DSM 17275GCA_001687625completencbi192421
66792Planococcus maritimus strain DSM 17275192421.5completepatric192421
66792Planococcus maritimus DSM 172752811995333completeimg192421

GC content

@refGC-contentmethod
686748
6777048high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes73no
flagellatedyes57.126no
flagellatedyes57.126no
gram-positiveyes93.116no
gram-positiveyes93.116no
anaerobicno99.071no
anaerobicno99.071no
aerobicyes95.398no
aerobicyes95.398no
halophileyes88.148no
halophileyes88.148no
spore-formingyes57.776no
spore-formingyes57.776no
glucose-utilyes89.803no
glucose-utilyes89.803no
thermophileno99.743yes
motileyes81.21no
motileyes81.21no
glucose-fermentno86.997no
glucose-fermentno86.997no
thermophileno99.743yes

External links

@ref: 6867

culture collection no.: DSM 17275, CIP 11543, JCM 11543, KCCM 41587, CIP 108219

straininfo link

  • @ref: 81176
  • straininfo: 128004

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny14657138Planococcus maritimus sp. nov., isolated from sea water of a tidal flat in Korea.Yoon JH, Weiss N, Kang KH, Oh TK, Park YHInt J Syst Evol Microbiol10.1099/ijs.0.02557-02003DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Gram-Positive Bacteria/*classification/genetics/growth & development/isolation & purification, Korea, Molecular Sequence Data, *Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/microbiologyGenetics
Phylogeny25652338Planococcus dechangensis sp. nov., a moderately halophilic bacterium isolated from saline and alkaline soils in Dechang Township, Zhaodong City, China.Wang K, Zhang L, Li J, Pan Y, Meng L, Xu T, Zhang C, Liu H, Hong S, Huang H, Jiang JAntonie Van Leeuwenhoek10.1007/s10482-015-0399-12015Aerobiosis, Bacterial Typing Techniques, Base Composition, China, Cities, Cluster Analysis, Cytosol/chemistry, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA-Directed RNA Polymerases, Fatty Acids/analysis, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Planococcus Bacteria/*classification/genetics/*isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, *Soil Microbiology, Temperature, Vitamin K 2/analysisGenetics
Phylogeny27959786Planococcus versutus sp. nov., isolated from soil.See-Too WS, Ee R, Madhaiyan M, Kwon SW, Tan JY, Lim YL, Convey P, Pearce DA, Yin WF, Chan KGInt J Syst Evol Microbiol10.1099/ijsem.0.0017212017Antarctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids, *Phylogeny, Planococcus Bacteria/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny31287396Indiicoccus explosivorum gen. nov., sp. nov., isolated from an explosives waste contaminated site.Pal Y, Mayilraj S, Paul M, Schumann P, Krishnamurthi SInt J Syst Evol Microbiol10.1099/ijsem.0.0035412019Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Explosive Agents, Fatty Acids/chemistry, India, Peptidoglycan/chemistry, Phosphatidylethanolamines, *Phylogeny, Pigmentation, Planococcaceae/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Pollutants, Vitamin K 2/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitle
6867Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17275)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17275
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
33213Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5817
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
69479João 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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
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)
81176Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID128004.1StrainInfo: A central database for resolving microbial strain identifiers
120838Curators of the CIPCollection of Institut Pasteur (CIP 108219)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108219