Strain identifier

BacDive ID: 5645

Type strain: Yes

Species: Salegentibacter salinarum

Strain Designation: ISL-4

Strain history: <- JH Yoon, KRIBB

NCBI tax ID(s): 447422 (species)

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

@ref: 16842

BacDive-ID: 5645

DSM-Number: 23400

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

description: Salegentibacter salinarum ISL-4 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from marine solar saltern.

NCBI tax id

  • NCBI tax id: 447422
  • Matching level: species

strain history

@refhistory
16842<- CCUG <- J. H. Yoon, Korea Res. Inst. Biosci. & Biotechnol. (KRIBB), Taejon, South Korea
67771<- JH Yoon, KRIBB

doi: 10.13145/bacdive5645.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Salegentibacter
  • species: Salegentibacter salinarum
  • full scientific name: Salegentibacter salinarum Yoon et al. 2008

@ref: 16842

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Salegentibacter

species: Salegentibacter salinarum

full scientific name: Salegentibacter salinarum Yoon et al. 2008

strain designation: ISL-4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32408negative3.25 µm0.65 µmrod-shapedno
67771rod-shapedno
67771negative
69480negative99.989

colony morphology

  • @ref: 60145
  • incubation period: 1-2 days

pigmentation

  • @ref: 32408
  • production: no

Culture and growth conditions

culture medium

  • @ref: 16842
  • 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
16842positivegrowth28mesophilic
32408positivegrowth04-41
32408positiveoptimum30mesophilic
60145positivegrowth30mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepH
32408positivegrowth5.5-8
32408positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32408aerobe
60145aerobe
67771aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.971

halophily

@refsaltgrowthtested relationconcentration
32408NaClpositivegrowth02-17 %
32408NaClpositiveoptimum8 %

observation

  • @ref: 67771
  • observation: quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3240817306maltose+carbon source
3240837684mannose+carbon source
3240815361pyruvate+carbon source
3240817814salicin+carbon source
3240827082trehalose+carbon source
324084853esculin+hydrolysis

enzymes

@refvalueactivityec
32408acid phosphatase+3.1.3.2
32408alkaline phosphatase+3.1.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
16842marine solar salternYellow SeaRepublic of KoreaKORAsia
60145Marine solar salternYellow SeaRepublic of KoreaKORAsia2005
67771From saltern fieldthe Yellow SeaRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Condition#Saline
#Engineered#Industrial#Industrial production
#Environmental#Terrestrial#Coast

Safety information

risk assessment

  • @ref: 16842
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16842
  • description: Salegentibacter salinarum strain ISL-4 16S ribosomal RNA gene, partial sequence
  • accession: EF612764
  • length: 1485
  • database: ena
  • NCBI tax ID: 447422

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salegentibacter salinarum KCTC 12975GCA_002833365contigncbi447422
66792Salegentibacter salinarum DSM 23400GCA_900168115scaffoldncbi447422
66792Salegentibacter salinarum strain DSM 23400447422.4wgspatric447422
66792Salegentibacter salinarum strain KCTC 12975447422.5wgspatric447422
66792Salegentibacter salinarum DSM 234002595698206draftimg447422

GC content

  • @ref: 16842
  • GC-content: 37.9

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno87.899yes
flagellatedno93.379yes
gram-positiveno98.161yes
anaerobicno99.351no
aerobicyes90.781yes
halophileyes69.506yes
spore-formingno93.331no
thermophileno99.451no
glucose-utilyes90.732no
glucose-fermentno87.063no

External links

@ref: 16842

culture collection no.: DSM 23400, CCUG 54354, KCTC 12975

straininfo link

  • @ref: 75128
  • straininfo: 404079

literature

  • topic: Phylogeny
  • Pubmed-ID: 18218932
  • title: Salegentibacter salinarum sp. nov., isolated from a marine solar saltern.
  • authors: Yoon JH, Lee MH, Kang SJ, Oh TK
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65448-0
  • year: 2008
  • mesh: Base Composition, DNA, Bacterial/analysis, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification/physiology, Genes, rRNA, Geologic Sediments/*microbiology, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, *Sodium Chloride, Species Specificity
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16842Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23400)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23400
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
32408Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2863228776041
60145Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 54354)https://www.ccug.se/strain?id=54354
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)
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
75128Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID404079.1StrainInfo: A central database for resolving microbial strain identifiers