Strain identifier

BacDive ID: 14426

Type strain: Yes

Species: Salinicoccus hispanicus

Strain Designation: J-82

Strain history: CIP <- 1996, NCIMB <- A. Ventosa

NCBI tax ID(s): 157225 (species)

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General

@ref: 1999

BacDive-ID: 14426

DSM-Number: 5352

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive

description: Salinicoccus hispanicus J-82 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from solar saltern.

NCBI tax id

  • NCBI tax id: 157225
  • Matching level: species

strain history

@refhistory
1999<- A. Ventosa, Univ. Sevilla, Spain
67770CCM 4148 <-- A. Ventosa J-82.
119921CIP <- 1996, NCIMB <- A. Ventosa

doi: 10.13145/bacdive14426.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Staphylococcaceae
  • genus: Salinicoccus
  • species: Salinicoccus hispanicus
  • full scientific name: Salinicoccus hispanicus (Marquez et al. 1990) Ventosa et al. 1993

  • synonyms

    • @ref: 20215
    • synonym: Marinococcus hispanicus

@ref: 1999

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Salinicoccus

species: Salinicoccus hispanicus

full scientific name: Salinicoccus hispanicus (Marquez et al. 1990) Ventosa et al. 1993

strain designation: J-82

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
119921positivecoccus-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
199910% 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
41293MEDIUM 174 - for Salinicoccus hispanicusyesSodium hydrogen carbonate (0.060 g);Distilled water make up to (1000.000 ml);Sodium chloride (81.000 g);Potassium chloride (2.000 g);Magnesium chloride hexahydrate(7.000 g);Magnesium sulphate heptahydrate (9.600 g);Calcium chloride dihydrate (0.360 g);Glu
119921CIP Medium 174yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=174

culture temp

@refgrowthtypetemperaturerange
1999positivegrowth37mesophilic
41293positivegrowth37mesophilic
55768positivegrowth22-37
67770positivegrowth37mesophilic
119921positivegrowth10-41
119921nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
55768aerobe
119921obligate aerobe

spore formation

@refspore formationconfidence
69481no99
69480no99.896

halophily

@refsaltgrowthtested relationconcentration
119921NaClpositivegrowth4-10 %
119921NaClnogrowth0 %
119921NaClnogrowth2 %

observation

  • @ref: 67770
  • observation: quinones: MK-6

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
119921hippurate-hydrolysis606565
119921nitrate+reduction17632
119921nitrite-reduction16301

metabolite production

  • @ref: 119921
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11992115688acetoin-
11992117234glucose+

enzymes

@refvalueactivityec
119921oxidase+
119921beta-galactosidase+3.2.1.23
119921alcohol dehydrogenase-1.1.1.1
119921gelatinase+/-
119921amylase-
119921DNase-
119921caseinase-3.4.21.50
119921catalase+1.11.1.6
119921tween esterase-
119921gamma-glutamyltransferase-2.3.2.2
119921lecithinase-
119921lipase-
119921lysine decarboxylase-4.1.1.18
119921ornithine decarboxylase-4.1.1.17
119921phenylalanine ammonia-lyase-4.3.1.24
119921protease+
119921urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119921-+++-------+---++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119921-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119921------------------+-----------++------------------------------------------------+-----+------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
1999solar salternSpainESPEurope
55768Solar salternSpainESPEuropeAlicante
67770Solar saltern near AlicanteSpainESPEurope
119921SalternsSpainESPEurope

isolation source categories

  • Cat1: #Condition
  • Cat2: #Saline

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
19991Risk group (German classification)
1199211Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Salinicoccus hispanicus 16S ribosomal RNA gene, partial sequence
  • accession: AY028927
  • length: 1508
  • database: ena
  • NCBI tax ID: 157225

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salinicoccus hispanicus J-82GCA_009831115contigncbi157225
66792Salinicoccus hispanicus strain J-82157225.3wgspatric157225

GC content

  • @ref: 67770
  • GC-content: 45.7
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileno89.605no
gram-positiveyes91.424no
anaerobicno99.07no
aerobicyes93.985yes
halophileyes95.551no
spore-formingno93.233no
thermophileno99.376no
glucose-utilyes87.706no
flagellatedno92.677no
glucose-fermentno53.005no

External links

@ref: 1999

culture collection no.: DSM 5352, ATCC 49259, CCM 4148, CCUG 43288, JCM 14631, CIP 104760, NCIMB 12836

straininfo link

  • @ref: 83570
  • straininfo: 10583

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17329798Salinicoccus jeotgali sp. nov., isolated from jeotgal, a traditional Korean fermented seafood.Aslam Z, Lim JH, Im WT, Yasir M, Chung YR, Lee STInt J Syst Evol Microbiol10.1099/ijs.0.64586-02007DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fermentation, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seafood/*microbiology, Staphylococcaceae/*classification/genetics/isolation & purificationGenetics
Phylogeny17911305Salinicoccus kunmingensis sp. nov., a moderately halophilic bacterium isolated from a salt mine in Yunnan, south-west China.Chen YG, Cui XL, Pukall R, Li HM, Yang YL, Xu LH, Wen ML, Peng Q, Jiang CLInt J Syst Evol Microbiol10.1099/ijs.0.64783-02007Aerobiosis/physiology, Bacterial Typing Techniques, Base Composition, Catalase/metabolism, Cell Wall/chemistry, China, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Glycine/analysis, Hydrogen-Ion Concentration, Locomotion/physiology, Lysine/analysis, Molecular Sequence Data, Oxidoreductases/metabolism, Phylogeny, Pigments, Biological/biosynthesis, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, *Soil Microbiology, Staphylococcaceae/*classification/genetics/*isolation & purification/physiology, TemperatureMetabolism
Phylogeny18599690Salinicoccus halodurans sp. nov., a moderate halophile from saline soil in China.Wang X, Xue Y, Yuan S, Zhou C, Ma YInt J Syst Evol Microbiol10.1099/ijs.0.65467-02008China, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Salts, *Soil Microbiology, Species Specificity, Staphylococcaceae/*classification/genetics/growth & development/*isolation & purificationGenetics
Phylogeny21037029Salinicoccus sesuvii sp. nov., isolated from the rhizosphere of Sesuvium portulacastrum.Kampfer P, Arun AB, Busse HJ, Young CC, Lai WA, Rekha PD, Chen WMInt J Syst Evol Microbiol10.1099/ijs.0.027524-02010Aizoaceae/microbiology, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Polyamines/metabolism, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Staphylococcaceae/*classification/genetics/*isolation & purificationGenetics
Phylogeny27381021Salinicoccus amylolyticus sp. nov., isolated from a saltern.Srinivas A, Divyasree B, Tushar L, Suresh G, Sasikala C, Ramana CVInt J Syst Evol Microbiol10.1099/ijsem.0.0012702016Amino Acids/chemistry, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, Staphylococcaceae/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny32538739Salinicoccus cyprini sp. nov., isolated from the gut of mirror carp, Cyprinus carpio var. specularis.Talwar C, Singh AK, Choksket S, Korpole S, Lal R, Negi RKInt J Syst Evol Microbiol10.1099/ijsem.0.0042472020Animals, Bacterial Typing Techniques, Base Composition, Carps/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Gastrointestinal Microbiome, Gastrointestinal Tract/*microbiology, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Staphylococcaceae/*classification/isolation & purification, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1999Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5352)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5352
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
41293Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16704
55768Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 43288)https://www.ccug.se/strain?id=43288
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/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
83570Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID10583.1StrainInfo: A central database for resolving microbial strain identifiers
119921Curators of the CIPCollection of Institut Pasteur (CIP 104760)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104760