Strain identifier

BacDive ID: 13846

Type strain: Yes

Species: Ponticoccus litoralis

Strain Designation: CL-GR66

Strain history: <- B. C. Cho, Seoul Nat. Univ.; CL-GR66

NCBI tax ID(s): 1122969 (strain), 422297 (species)

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General

@ref: 7817

BacDive-ID: 13846

DSM-Number: 18986

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, ovoid-shaped

description: Ponticoccus litoralis CL-GR66 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from coastal seawater.

NCBI tax id

NCBI tax idMatching level
422297species
1122969strain

strain history

  • @ref: 7817
  • history: <- B. C. Cho, Seoul Nat. Univ.; CL-GR66

doi: 10.13145/bacdive13846.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Ponticoccus
  • species: Ponticoccus litoralis
  • full scientific name: Ponticoccus litoralis Hwang and Cho 2008

@ref: 7817

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Ponticoccus

species: Ponticoccus litoralis

full scientific name: Ponticoccus litoralis Hwang and Cho 2008

strain designation: CL-GR66

type strain: yes

Morphology

cell morphology

  • @ref: 32516
  • gram stain: negative
  • cell length: 1 µm
  • cell width: 0.65 µm
  • cell shape: ovoid-shaped
  • motility: no

Culture and growth conditions

culture medium

  • @ref: 7817
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: 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

culture temp

@refgrowthtypetemperaturerange
7817positivegrowth28mesophilic
32516positivegrowth10-37
32516positiveoptimum30mesophilic

culture pH

@refabilitytypepH
32516positivegrowth06-08
32516positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 32516
  • oxygen tolerance: aerobe

halophily

@refsaltgrowthtested relationconcentration
32516NaClpositivegrowth01-15 %
32516NaClpositiveoptimum4 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3251630089acetate+carbon source
3251616449alanine+carbon source
3251622599arabinose+carbon source
3251629016arginine+carbon source
3251617234glucose+carbon source
3251629864mannitol+carbon source
3251617268myo-inositol+carbon source
3251626271proline+carbon source
3251633942ribose+carbon source
3251617992sucrose+carbon source
3251617632nitrate+reduction

enzymes

@refvalueactivityec
32516acid phosphatase+3.1.3.2
32516alkaline phosphatase+3.1.3.1
32516catalase+1.11.1.6
32516gelatinase+
32516cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 7817
  • sample type: coastal seawater
  • geographic location: Busan
  • country: Republic of Korea
  • origin.country: KOR
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Terrestrial#Coast

taxonmaps

  • @ref: 69479
  • File name: preview.99_150324.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_826;97_965;98_4944;99_150324&stattab=map
  • Last taxonomy: Ponticoccus litoralis
  • 16S sequence: EF211829
  • Sequence Identity:
  • Total samples: 121
  • soil counts: 4
  • aquatic counts: 63
  • animal counts: 54

Safety information

risk assessment

  • @ref: 7817
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7817
  • description: Ponticoccus litoralis strain CL-GR66 16S ribosomal RNA gene, partial sequence
  • accession: EF211829
  • length: 1357
  • database: ena
  • NCBI tax ID: 422297

Genome sequences

  • @ref: 66792
  • description: Ponticoccus litoralis DSM 18986
  • accession: 2574179734
  • assembly level: draft
  • database: img
  • NCBI tax ID: 1122969

GC content

  • @ref: 7817
  • GC-content: 67.9

External links

@ref: 7817

culture collection no.: DSM 18986, KCCM 90028

straininfo link

  • @ref: 83022
  • straininfo: 354321

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18523174Ponticoccus litoralis gen. nov., sp. nov., a marine bacterium in the family Rhodobacteraceae.Hwang CY, Cho BCInt J Syst Evol Microbiol10.1099/ijs.0.65612-02008Bacterial Typing Techniques, Base Composition, Base Sequence, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Korea, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/chemistry/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Seawater/*microbiology, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny23087164Litorisediminicola beolgyonensis gen. nov., sp. nov., isolated from a coastal sediment.Yoon JH, Lee SY, Jung YT, Lee JS, Lee KCInt J Syst Evol Microbiol10.1099/ijs.0.043588-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Genes, Bacterial, Geologic Sediments/*microbiology, Molecular Sequence Data, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/analysis, Water MicrobiologyGenetics
Phylogeny25634948Ponticoccus lacteus sp. nov. of the family Rhodobacteraceae, isolated from surface seawater.Yang Y, Sun J, Tang K, Lin D, Li C, Lin YInt J Syst Evol Microbiol10.1099/ijs.0.0000862015Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryGenetics
Phylogeny25908713Alkalimicrobium pacificum gen. nov., sp. nov., a marine bacterium in the family Rhodobacteraceae.Zhang G, Yang Y, Wang S, Sun Z, Jiao KInt J Syst Evol Microbiol10.1099/ijs.0.0002822015Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, Pacific Ocean, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryGenetics
Phylogeny28984559Ponticoccus marisrubri sp. nov., a moderately halophilic marine bacterium of the family Rhodobacteraceae.Zhang G, Haroon MF, Zhang R, Dong X, Liu D, Xiong Q, Xun W, Dong X, Stingl UInt J Syst Evol Microbiol10.1099/ijsem.0.0022802017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Indian Ocean, Nucleic Acid Hybridization, Phosphatidylglycerols/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Saudi Arabia, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
Phylogeny29234985Ponticoccus alexandrii sp. nov., a novel bacterium isolated from the marine toxigenic dinoflagellate Alexandrium minutum.Yang Q, Zhang X, Li L, Zhang R, Feng L, Mu JAntonie Van Leeuwenhoek10.1007/s10482-017-0996-22017DNA, Bacterial/genetics, Dinoflagellida/*microbiology, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*genetics/isolation & purificationEnzymology
Phylogeny35262476Mameliella sediminis sp. nov., a novel polyhydroxyalkanoate-accumulating bacterium.Zheng WS, Zhai SQ, Zhang MJ, Huang YInt J Syst Evol Microbiol10.1099/ijsem.0.0052742022Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, Phylogeny, *Polyhydroxyalkanoates, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7817Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18986)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18986
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
32516Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2873628776041
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)
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
83022Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID354321.1StrainInfo: A central database for resolving microbial strain identifiers