Strain identifier

BacDive ID: 11272

Type strain: Yes

Species: Marinomonas polaris

Strain Designation: CK13

Strain history: S. Shivaji CK13.

NCBI tax ID(s): 1122206 (strain), 293552 (species)

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General

@ref: 6513

BacDive-ID: 11272

DSM-Number: 16579

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

description: Marinomonas polaris CK13 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from coastal sea water.

NCBI tax id

NCBI tax idMatching level
293552species
1122206strain

strain history

@refhistory
6513<- S. Shivaji; CK13
67770S. Shivaji CK13.

doi: 10.13145/bacdive11272.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Oceanospirillales
  • family: Oceanospirillaceae
  • genus: Marinomonas
  • species: Marinomonas polaris
  • full scientific name: Marinomonas polaris Gupta et al. 2006

@ref: 6513

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Oceanospirillales

family: Oceanospirillaceae

genus: Marinomonas

species: Marinomonas polaris

full scientific name: Marinomonas polaris Gupta et al. 2006

strain designation: CK13

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31624negative2-3.2 µm0.6-0.8 µmrod-shapedyes
69480yes97.652
69480negative99.945

pigmentation

  • @ref: 31624
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 6513
  • name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/381
  • composition: Name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381) Composition: Agar 20.0 g/l NaCl 10.0 g/l Tryptone 10.0 g/l Yeast extract 5.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
6513positivegrowth22psychrophilic
31624positivegrowth04-37
31624positiveoptimum30mesophilic
67770positivegrowth22psychrophilic

culture pH

@refabilitytypepHPH range
31624positivegrowth06-10alkaliphile
31624positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 31624
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
31624no
69481no100
69480no99.99

halophily

@refsaltgrowthtested relationconcentration
31624NaClpositivegrowth0-11 %
31624NaClpositiveoptimum5 %

observation

  • @ref: 31624
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3162430089acetate+carbon source
3162415963ribitol+carbon source
3162429016arginine+carbon source
3162422653asparagine+carbon source
3162417057cellobiose+carbon source
3162423652dextrin+carbon source
3162428757fructose+carbon source
3162428260galactose+carbon source
3162424265gluconate+carbon source
3162417234glucose+carbon source
3162417754glycerol+carbon source
3162415428glycine+carbon source
3162427570histidine+carbon source
3162417716lactose+carbon source
3162417306maltose+carbon source
3162437684mannose+carbon source
3162433942ribose+carbon source
3162430911sorbitol+carbon source
3162417992sucrose+carbon source
3162426986threonine+carbon source
3162418222xylose+carbon source

enzymes

@refvalueactivityec
31624acid phosphatase+3.1.3.2
31624alkaline phosphatase+3.1.3.1
31624catalase+1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic location
6513coastal sea waterKerguelen Island
67770Coastal seawater collected from the subantarctic Kerguelen Island

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_4860.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_113;96_407;97_461;98_3638;99_4860&stattab=map
  • Last taxonomy: Marinomonas polaris subclade
  • 16S sequence: AJ833000
  • Sequence Identity:
  • Total samples: 1368
  • soil counts: 51
  • aquatic counts: 1130
  • animal counts: 166
  • plant counts: 21

Safety information

risk assessment

  • @ref: 6513
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 6513
  • description: Marinomonas sp. CK13 partial 16S rRNA gene
  • accession: AJ833000
  • length: 1475
  • database: ena
  • NCBI tax ID: 293552

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marinomonas polaris DSM 165791122206.4wgspatric1122206
66792Marinomonas polaris DSM 165792582581270draftimg1122206
67770Marinomonas polaris DSM 16579GCA_900129155scaffoldncbi1122206

GC content

  • @ref: 31624
  • GC-content: 41.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes93.217yes
flagellatedyes93.684no
gram-positiveno98.237yes
anaerobicno97.361no
halophileyes76.303no
spore-formingno94.185yes
thermophileno99.732yes
glucose-utilyes90.055no
aerobicyes90.936yes
glucose-fermentno79.246no

External links

@ref: 6513

culture collection no.: DSM 16579, JCM 12522, MTCC 6645, CGMCC 1.6484, CIP 109165

straininfo link

  • @ref: 80505
  • straininfo: 289980

literature

  • topic: Phylogeny
  • Pubmed-ID: 16449440
  • title: Marinomonas polaris sp. nov., a psychrohalotolerant strain isolated from coastal sea water off the subantarctic Kerguelen islands.
  • authors: Gupta P, Chaturvedi P, Pradhan S, Delille D, Shivaji S
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63921-0
  • year: 2006
  • mesh: Antarctic Regions, Bacterial Typing Techniques, *Cold Temperature, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Genotype, Molecular Sequence Data, Nucleic Acid Hybridization, Oceanospirillaceae/*classification/genetics/isolation & purification/physiology, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6513Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16579)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16579
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
31624Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2791028776041
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/
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
80505Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID289980.1StrainInfo: A central database for resolving microbial strain identifiers