Strain identifier

BacDive ID: 14427

Type strain: Yes

Species: Salinicoccus roseus

Strain Designation: 9

Strain history: CIP <- 1996, NCIMB <- DSMZ

NCBI tax ID(s): 45670 (species)

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General

@ref: 1998

BacDive-ID: 14427

DSM-Number: 5351

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

description: Salinicoccus roseus 9 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from solar saltern.

NCBI tax id

  • NCBI tax id: 45670
  • Matching level: species

strain history

@refhistory
1998<- A. Ventosa, Univ. Sevilla, Spain
67770CCM 3516 <-- A. Ventosa no. 9.
122265CIP <- 1996, NCIMB <- DSMZ

doi: 10.13145/bacdive14427.20230509.8.1

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 roseus
  • full scientific name: Salinicoccus roseus Ventosa et al. 1990

@ref: 1998

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Salinicoccus

species: Salinicoccus roseus

full scientific name: Salinicoccus roseus Ventosa et al. 1990

strain designation: 9

type strain: yes

Morphology

cell morphology

  • @ref: 122265
  • gram stain: positive
  • cell shape: coccus-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1998MEDIUM 514 PLUS ADDITIONAL SALT (DSMZ Medium 514b)yeshttps://mediadive.dsmz.de/medium/514bName: MEDIUM 514 plus additional salt (DSMZ Medium 514b; with strain-specific modifications) Composition: NaCl 50.0 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
199810% 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
39092MEDIUM 167 - for Cytophaga uliginosa, Demetria terragena and Marinococcus al busyesDistilled water make up to (1000.000 ml);Sodium chloride (50.000 g);Magnesium sulphate heptahydrate (1.000 g);Agar (20.000 g);Yeast extract (5.000 g);Peptone (10.000 g);Tween 80 (50.000 mg);Glycerol (2.000 g);Malt extract (5.000 g);Beef extract (2.000 g);
122265CIP Medium 234yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=234
122265CIP Medium 167yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=167

culture temp

@refgrowthtypetemperaturerange
1998positivegrowth37mesophilic
39092positivegrowth37mesophilic
55771positivegrowth35mesophilic
67770positivegrowth37mesophilic
122265positivegrowth10-41
122265nogrowth45thermophilic

culture pH

  • @ref: 55771
  • ability: positive
  • type: growth
  • pH: 7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
55771aerobe
122265obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
55771NaClpositivegrowth8 %
122265NaClpositivegrowth4-10 %
122265NaClnogrowth0 %
122265NaClnogrowth2 %

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
122265nitrate+reduction17632
122265nitrite-reduction16301

metabolite production

  • @ref: 122265
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 122265
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
122265oxidase-
122265beta-galactosidase+3.2.1.23
122265alcohol dehydrogenase-1.1.1.1
122265gelatinase-
122265caseinase-3.4.21.50
122265catalase+1.11.1.6
122265tween esterase-
122265gamma-glutamyltransferase+2.3.2.2
122265lecithinase-
122265lipase-
122265lysine decarboxylase-4.1.1.18
122265ornithine decarboxylase-4.1.1.17
122265phenylalanine ammonia-lyase-4.3.1.24
122265protease-
122265tryptophan deaminase-
122265urease-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

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    55771C14:0 ISO1.213.618
    55771C15:0 ANTEISO33.414.711
    55771C15:0 ISO11.514.621
    55771C15:1 ISO AT 5114.387
    55771C16:0 iso3.215.626
    55771C16:1 ω7c alcohol3.515.386
    55771C17:0 anteiso11.516.722
    55771C17:0 iso5.216.629
    55771C17:1 ISO I/C16:0 DMA3.716.481
    55771C17:1 ω10c ISO9.716.387
    55771C18:2 ω6,9c/C18:0 ANTE117.724
    55771C19:0 ANTEISO4.418.729
    55771C19:0 ISO4.518.633
    55771Unidentified1.814.308
    55771Unidentified1.315.308
    55771Unidentified3.116.305
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122265-++--+----+-+--+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122265-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122265---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
1998solar salternSpainESPEurope
55771Solar salternSpainESPEurope
67770Solar saltern in AlicanteSpainESPEurope
122265SalternsSpainESPEurope

isolation source categories

  • Cat1: #Condition
  • Cat2: #Saline

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
19981Risk group (German classification)
1222651Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: S.roseus 16S rRNA gene
  • accession: X94559
  • length: 1543
  • database: ena
  • NCBI tax ID: 45670

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salinicoccus roseus CCM 3516GCA_014634945scaffoldncbi45670
66792Salinicoccus roseus strain CCM 351645670.10wgspatric45670
66792Salinicoccus roseus strain DSM 535145670.8wgspatric45670
66792Salinicoccus roseus DSM 53512786546135draftimg45670
67770Salinicoccus roseus DSM 5351GCA_003814515scaffoldncbi45670

GC content

  • @ref: 67770
  • GC-content: 51.2
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno91.567no
gram-positiveyes94.109no
anaerobicno98.93yes
aerobicyes91.464yes
halophileyes96.57yes
spore-formingno93.659no
thermophileno99.374yes
glucose-utilyes88.75no
motileno85.685no
glucose-fermentno51.35no

External links

@ref: 1998

culture collection no.: CCUG 43291, DSM 5351, ATCC 49258, CCM 3516, JCM 14630, CIP 104761, NCIMB 12835

straininfo link

  • @ref: 83571
  • straininfo: 42387

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
Phylogeny17684278Salinicoccus luteus sp. nov., isolated from a desert soil.Zhang YQ, Yu LY, Liu HY, Zhang YQ, Xu LH, Li WJInt J Syst Evol Microbiol10.1099/ijs.0.64967-02007DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Desert Climate, Egypt, Fatty Acids/analysis, Hydrogen-Ion Concentration, Molecular Sequence Data, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Staphylococcaceae/chemistry/*classification/*isolation & purification/physiology, TemperatureGenetics
Phylogeny17766863Salinicoccus siamensis sp. nov., isolated from fermented shrimp paste in Thailand.Pakdeeto A, Tanasupawat S, Thawai C, Moonmangmee S, Kudo T, Itoh TInt J Syst Evol Microbiol10.1099/ijs.0.64876-02007Aerobiosis/physiology, Animals, Bacterial Typing Techniques, Base Composition, Catalase/biosynthesis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Locomotion/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidoreductases/biosynthesis, Pandalidae/*microbiology, Peptidoglycan/chemistry, Phylogeny, Pigments, Biological/biosynthesis, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Shellfish/*microbiology, Spores, Bacterial/cytology, Staphylococcaceae/*classification/genetics/*isolation & purification/physiology, ThailandGenetics
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
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

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1998Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5351)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5351
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
39092Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16705
55771Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 43291)https://www.ccug.se/strain?id=43291
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
83571Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID42387.1StrainInfo: A central database for resolving microbial strain identifiers
122265Curators of the CIPCollection of Institut Pasteur (CIP 104761)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104761