Strain identifier

BacDive ID: 24507

Type strain: Yes

Species: Cognatishimia maritima

Strain Designation: GSW-6, GSW-M6

Strain history: <- KCTC <- J.-H. Yoon, KRIBB; GSW-M6

NCBI tax ID(s): 870908 (species)

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

@ref: 20862

BacDive-ID: 24507

DSM-Number: 28223

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

description: Cognatishimia maritima GSW-6 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sea water.

NCBI tax id

  • NCBI tax id: 870908
  • Matching level: species

strain history

  • @ref: 20862
  • history: <- KCTC <- J.-H. Yoon, KRIBB; GSW-M6

doi: 10.13145/bacdive24507.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Cognatishimia
  • species: Cognatishimia maritima
  • full scientific name: Cognatishimia maritima (Park et al. 2012) Wirth and Whitman 2018
  • synonyms

    @refsynonym
    20215Thalassovita maritima
    20215Thalassobius maritimus

@ref: 20862

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Cognatishimia

species: Cognatishimia maritima

full scientific name: Cognatishimia maritima (Park et al. 2012) Wirth and Whitman 2018

strain designation: GSW-6, GSW-M6

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30084negative1.0-6.0 µm0.4-0.8 µmrod-shapedyes
69480negative99.998

colony morphology

@refincubation period
208623-7 days
621842 days

pigmentation

  • @ref: 30084
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 20862
  • 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
20862positivegrowth25mesophilic
30084positivegrowth10-37
30084positiveoptimum30mesophilic
62184positivegrowth30mesophilic

culture pH

  • @ref: 30084
  • ability: positive
  • type: optimum
  • pH: 7.0-8.0

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30084aerobe
62184aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.998

halophily

@refsaltgrowthtested relationconcentration
30084NaClpositivegrowth0-7 %
30084NaClpositiveoptimum2 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3008422599arabinose+carbon source
3008417057cellobiose+carbon source
3008416947citrate+carbon source
3008428757fructose+carbon source
3008417234glucose+carbon source
3008437684mannose+carbon source
3008417814salicin+carbon source
3008417632nitrate+reduction
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
20862catalase+1.11.1.6
20862cytochrome-c oxidase+1.9.3.1
30084alkaline phosphatase+3.1.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
20862-------+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
20862sea waterGheje IslandRepublic of KoreaKORAsia
62184SeawaterGeoje IslandRepublic of KoreaKORAsia2008

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_2540.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_777;97_1220;98_1466;99_2540&stattab=map
  • Last taxonomy: Cognatishimia maritima
  • 16S sequence: HM748766
  • Sequence Identity:
  • Total samples: 479
  • soil counts: 7
  • aquatic counts: 462
  • animal counts: 9
  • plant counts: 1

Safety information

risk assessment

  • @ref: 20862
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20862
  • description: Thalassobius maritimus strain GSW-M6 16S ribosomal RNA gene, partial sequence
  • accession: HM748766
  • length: 1384
  • database: ena
  • NCBI tax ID: 870908

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cognatishimia maritima DSM 28223GCA_900129685scaffoldncbi870908
66792Thalassobius maritimus strain DSM 28223870908.3wgspatric870908
66792Cognatishimia maritima DSM 282232617270829draftimg870908

GC content

  • @ref: 30084
  • GC-content: 57

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes60.648yes
flagellatedno76.335no
gram-positiveno98.476yes
anaerobicno99.195yes
aerobicyes93.963no
halophileyes75.266no
spore-formingno96.852no
thermophileno97.786yes
glucose-utilyes76.849no
glucose-fermentno91.561no

External links

@ref: 20862

culture collection no.: DSM 28223, CCUG 60021, KCTC 23347

straininfo link

  • @ref: 88365
  • straininfo: 379060

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21257694Thalassobius maritimus sp. nov., isolated from seawater.Park S, Lee MH, Lee JS, Oh TK, Yoon JHInt J Syst Evol Microbiol10.1099/ijs.0.029199-02011Aerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Korea, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Seawater/*microbiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, TemperatureGenetics
Phylogeny23070461Thalassococcus lentus sp. nov., an alphaproteobacterium isolated from seawater of a seaweed farm.Park S, Jung YT, Kim SI, Yoon JHAntonie Van Leeuwenhoek10.1007/s10482-012-9826-82012Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Seawater/*microbiology, Seaweed/growth & development, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature, Ubiquinone/analysisGenetics

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmedjournal
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
20862Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28223Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28223)
30084Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172644128776041
62184Curators of the CCUGhttps://www.ccug.se/strain?id=60021Culture Collection University of Gothenburg (CCUG) (CCUG 60021)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
68369Automatically annotated from API 20NE
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88365Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID379060.1