Strain identifier

BacDive ID: 17908

Type strain: Yes

Species: Dasania marina

Strain Designation: SE12

Strain history: <- HK Lee, KOPRI

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 16027

BacDive-ID: 17908

DSM-Number: 21967

keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic, Gram-negative

description: Dasania marina SE12 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from marine sediment.

NCBI tax id

NCBI tax idMatching level
1121374strain
471499species

strain history

@refhistory
16027<- KCTC <- Y. K. Lee, Korea Polar Research Institute, Incheon
67770H. K. Lee KOPRI 20902 <-- H. H. Cho <-- Y. K. Lee.
67771<- HK Lee, KOPRI

doi: 10.13145/bacdive17908.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Cellvibrionales
  • family: Spongiibacteraceae
  • genus: Dasania
  • species: Dasania marina
  • full scientific name: Dasania marina Lee et al. 2008

@ref: 16027

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Spongiibacteraceae

genus: Dasania

species: Dasania marina

full scientific name: Dasania marina Lee et al. 2008

strain designation: SE12

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
67771negative
69480yes92.809
69480negative99.997

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_21967_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21967_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21967_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21967_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_21967_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 16027
  • 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
16027positivegrowth20psychrophilic
67770positivegrowth20psychrophilic
67771positivegrowth10-20psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.986

observation

  • @ref: 67770
  • observation: quinones: Q-8

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
16027marine sedimentNy-Alesund, SpitsbergenNorwayNOREurope
67770Marine sediment sample from Ny-ÅlesundSpitsbergen IslandsNorwayNOREurope
67771From Kings bay SedimentRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_7245.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_305;96_3384;97_4155;98_5316;99_7245&stattab=map
  • Last taxonomy: Dasania marina subclade
  • 16S sequence: AY771747
  • Sequence Identity:
  • Total samples: 1799
  • soil counts: 46
  • aquatic counts: 1679
  • animal counts: 65
  • plant counts: 9

Safety information

risk assessment

  • @ref: 16027
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16027
  • description: Dasania marina strain KOPRI 20902 16S ribosomal RNA gene, partial sequence
  • accession: AY771747
  • length: 1486
  • database: ena
  • NCBI tax ID: 1121374

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Dasania marina DSM 219671121374.3wgspatric1121374
66792Dasania marina DSM 219672515154073draftimg1121374
67770Dasania marina DSM 21967GCA_000373485scaffoldncbi1121374

GC content

  • @ref: 67770
  • GC-content: 37
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes84.522no
flagellatedyes65.34no
gram-positiveno98.95yes
anaerobicno98.765yes
aerobicyes92.253yes
halophileyes70.33no
spore-formingno96.395no
thermophileno99.145yes
glucose-utilyes55.913no
glucose-fermentno91.327no

External links

@ref: 16027

culture collection no.: DSM 21967, JCM 13441, KCTC 12566, KOPRI 20902

straininfo link

  • @ref: 86897
  • straininfo: 397584

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18176532Dasania marina gen. nov., sp. nov., of the order Pseudomonadales, isolated from Arctic marine sediment.Lee YK, Hong SG, Cho HH, Cho KH, Lee HKJ Microbiol26442007Arctic Regions, Gammaproteobacteria/classification/genetics/*isolation & purification, Geologic Sediments/*microbiology, Norway, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyEnzymology
Phylogeny21538243Oceanicoccus sagamiensis gen. nov., sp. nov., a gammaproteobacterium isolated from sea water of Sagami Bay in Japan.Park S, Yoshizawa S, Kogure K, Yokota AJ Microbiol10.1007/s12275-011-0368-y2011Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Gammaproteobacteria/*classification/genetics/*isolation & purification/physiology, Japan, Locomotion, Molecular Sequence Data, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNAGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16027Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21967)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21967
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
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life 35: 676-683 201728604660
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
86897Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID397584.1StrainInfo: A central database for resolving microbial strain identifiers