Strain identifier

BacDive ID: 6018

Type strain: Yes

Species: Halomonas salina

Strain Designation: F8-11

Strain history: CIP <- 1999, ATCC <- M.J. Valderrama: strain F8-11

NCBI tax ID(s): 42565 (species)

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General

@ref: 2369

BacDive-ID: 6018

DSM-Number: 5928

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

description: Halomonas salina F8-11 is a mesophilic, Gram-negative, motile bacterium that was isolated from saline soil.

NCBI tax id

  • NCBI tax id: 42565
  • Matching level: species

strain history

@refhistory
2369<- M.J. Valderrama, F8-11
67770IAM 14438 <-- ATCC 49509 <-- M. J. Valderrama F8-11.
122379CIP <- 1999, ATCC <- M.J. Valderrama: strain F8-11

doi: 10.13145/bacdive6018.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Oceanospirillales
  • family: Halomonadaceae
  • genus: Halomonas
  • species: Halomonas salina
  • full scientific name: Halomonas salina (Valderrama et al. 1991) Dobson and Franzmann 1996

  • synonyms

    • @ref: 20215
    • synonym: Deleya salina

@ref: 2369

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Oceanospirillales

family: Halomonadaceae

genus: Halomonas

species: Halomonas salina

full scientific name: Halomonas salina (Valderrama et al. 1991) Dobson and Franzmann 1996

strain designation: F8-11

type strain: yes

Morphology

cell morphology

  • @ref: 122379
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2369MEDIUM 514 PLUS ADDITIONAL SALT (DSMZ Medium 514b)yeshttps://mediadive.dsmz.de/medium/514bName: MEDIUM 514 plus additional salt (DSMZ Medium 514b) Composition: NaCl 19.45 g/l Agar 17.5 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
236910% MH MEDIUM (DSMZ Medium 593)yeshttps://mediadive.dsmz.de/medium/593Name: 10% MH MEDIUM (DSMZ Medium 593) Composition: NaCl 81.0 g/l Agar 15.0 g/l Yeast extract 10.0 g/l MgSO4 9.6 g/l MgCl2 7.0 g/l Proteose peptone no. 3 5.0 g/l KCl 2.0 g/l Glucose 1.0 g/l CaCl2 0.36 g/l NaHCO3 0.06 g/l NaBr 0.026 g/l Distilled water
40291MEDIUM 318 - for Halomonas eurihalinayesSodium hydrogen carbonate (0.045 g);Distilled water make up to (1000.000 ml);Sodium chloride (60.700 g);Potassium chloride (1.500 g);Magnesium chloride hexahydrate(15.000 g);Magnesium sulphate heptahydrate (7.400 g);Calcium chloride dihydrate (0.270 g);Ag
122379CIP Medium 318yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=318

culture temp

@refgrowthtypetemperaturerange
2369positivegrowth30mesophilic
2369positivegrowth30-35mesophilic
40291positivegrowth30mesophilic
67770positivegrowth25mesophilic
122379positivegrowth15-41
122379nogrowth5psychrophilic
122379nogrowth45thermophilic

Physiology and metabolism

halophily

@refsaltgrowthtested relationconcentration
122379NaClpositivegrowth2-10 %
122379NaClnogrowth0 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose+builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose+builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside+builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
122379citrate-carbon source16947
122379esculin-hydrolysis4853
122379hippurate-hydrolysis606565
122379nitrate+reduction17632
122379nitrite-reduction16301
122379malonate-assimilation15792

metabolite production

  • @ref: 122379
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)-
68382esterase (C 4)-
68382alkaline phosphatase+3.1.3.1
122379oxidase+
122379beta-galactosidase-3.2.1.23
122379alcohol dehydrogenase-1.1.1.1
122379gelatinase-
122379amylase-
122379caseinase-3.4.21.50
122379catalase+1.11.1.6
122379tween esterase-
122379gamma-glutamyltransferase+2.3.2.2
122379lecithinase-
122379lipase-
122379lysine decarboxylase-4.1.1.18
122379ornithine decarboxylase-4.1.1.17
122379phenylalanine ammonia-lyase+4.3.1.24
122379protease-
122379tryptophan deaminase-
122379urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122379-+---++---++---+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122379---+++---+++--------+--+++++--++------++--+------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122379++++---+-++----+++++++++-------+--++-------++-+++++--+------+-+++------+++-+---++-+-----++++--++++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
2369saline soilAlicanteSpainESPEurope
67770Hypersaline soil near Mediterranean Sea coast near AlicanteSpainESPEurope
122379Environment, Saline soilAlicanteSpainESPEurope

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Condition#Saline

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
23691Risk group (German classification)
1223791Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Halomonas salina mRNA for 16S ribosomal RNA (partial), strain ATCC 49509AJ2434471493ena42565
20218Deleya salina 16S ribosomal RNA (16S rRNA) geneL426171443ena42565
20218D.salina 16S rRNA geneX872171478ena42565
2369Halomonas salina mRNA for 16S ribosomal RNA (partial), strain DSM 5928AJ2434481493ena42565

GC content

  • @ref: 67770
  • GC-content: 64.2
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 2369

culture collection no.: DSM 5928, ATCC 49509, IAM 14438, JCM 21221, CECT 5288, CIP 106092, NCIMB 13605

straininfo link

  • @ref: 75504
  • straininfo: 42525

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11211272Re-examining the 16S rDNA sequence of Halomonas salina.Baumgarte S, Moore ER, Tindall BJInt J Syst Evol Microbiol10.1099/00207713-51-1-512001DNA, Bacterial/analysis/genetics, DNA, Ribosomal/analysis/*genetics, Halomonas/*classification/*genetics, Molecular Sequence Data, Polymerase Chain Reaction, RNA, Ribosomal, 16S/*genetics, *Sequence Analysis, DNAGenetics
Phylogeny17519342Structural elucidation of a novel phosphoglycolipid isolated from six species of Halomonas.Giordano A, Vella FM, Romano I, Gambacorta AJ Lipid Res10.1194/jlr.M700152-JLR2002007Glycolipids/*chemistry, Halomonas/*chemistry/classification, Magnetic Resonance Spectroscopy, Mass Spectrometry, Molecular Sequence Data, Phosphatidylglycerols/*chemistry, Phospholipids/*chemistry, PhylogenyGenetics
Cultivation19551460Efficient production of ectoine using ectoine-excreting strain.Zhang LH, Lang YJ, Nagata SExtremophiles10.1007/s00792-009-0262-22009Amino Acids, Diamino/*biosynthesis/chemistry, Carbon/chemistry, Chromatography, High Pressure Liquid, Chromatography, Liquid/methods, Culture Media, Dose-Response Relationship, Drug, Fermentation, Halomonas/metabolism, Hydrogen-Ion Concentration, Mass Spectrometry/methods, Nitrogen/chemistry, Osmolar Concentration, Sodium Chloride/chemistry/pharmacology, Sodium Glutamate/pharmacology, Time FactorsBiotechnology
Biotechnology21331633Production of ectoine through a combined process that uses both growing and resting cells of Halomonas salina DSM 5928T.Lang YJ, Bai L, Ren YN, Zhang LH, Nagata SExtremophiles10.1007/s00792-011-0360-92011Amino Acids, Diamino/*biosynthesis/chemistry, Bioreactors, Chromatography, High Pressure Liquid, Chromatography, Ion Exchange, Culture Media, Ethanol/chemistry, Fermentation, Glutamic Acid/chemistry, Halomonas/*metabolism, Hydrogen-Ion Concentration, Industrial Microbiology, Sodium Chloride/chemistry, Temperature, Time FactorsCultivation
Phylogeny22328606Halomonas smyrnensis sp. nov., a moderately halophilic, exopolysaccharide-producing bacterium.Poli A, Nicolaus B, Denizci AA, Yavuzturk B, Kazan DInt J Syst Evol Microbiol10.1099/ijs.0.037036-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Halomonas/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Polysaccharides, Bacterial/*biosynthesis, Ponds, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Turkey, Ubiquinone/analysisGenetics
Metabolism22803353[Construction of ectoine absorption defective mutant for efficient ectoine production].Xu R, Zhang LWei Sheng Wu Xue Bao2012Adsorption, Amino Acid Transport Systems/genetics/metabolism, Amino Acids, Diamino/*biosynthesis, Genes, Bacterial, Halomonas/*genetics/*metabolism, MutationBiotechnology
Metabolism32370929Exploring the additive bio-agent impacts upon ectoine production by Halomonas salina DSM5928(T) using corn steep liquor and soybean hydrolysate as nutrient supplement.Chen PW, Cui ZY, Ng HS, Chi-Wei Lan JJ Biosci Bioeng10.1016/j.jbiosc.2020.03.0112020Amino Acids, Diamino/*metabolism, Batch Cell Culture Techniques, Biomass, Biotin/metabolism, Culture Media/chemistry/metabolism, *Fermentation, Halomonas/*metabolism, Industrial Microbiology/*methods, Industrial Waste, Nitrogen/metabolism, Soybeans/chemistry, Zea mays/chemistryBiotechnology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2369Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5928)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5928
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
40291Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18183
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
75504Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID42525.1StrainInfo: A central database for resolving microbial strain identifiers
122379Curators of the CIPCollection of Institut Pasteur (CIP 106092)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106092