Strain identifier

BacDive ID: 23235

Type strain: Yes

Species: Palleronia salina

Strain Designation: CL-SP27

Strain history: CIP <- 2007, JCM <- 2005, D. H. Choi, Seoul Nat. Univ, Seoul, Korea: strain CL-SP27

NCBI tax ID(s): 313368 (species)

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

@ref: 19056

BacDive-ID: 23235

DSM-Number: 26892

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

description: Palleronia salina CL-SP27 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from hypersaline water from solar saltern.

NCBI tax id

  • NCBI tax id: 313368
  • Matching level: species

strain history

@refhistory
19056<- JCM <- D. H. Choi; CL-SP27
67770D. H. Choi CL-SP27.
122385CIP <- 2007, JCM <- 2005, D. H. Choi, Seoul Nat. Univ, Seoul, Korea: strain CL-SP27

doi: 10.13145/bacdive23235.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Palleronia
  • species: Palleronia salina
  • full scientific name: Palleronia salina (Choi et al. 2007) Barnier et al. 2022
  • synonyms

    • @ref: 20215
    • synonym: Maribius salinus

@ref: 19056

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Maribius

species: Maribius salinus

full scientific name: Maribius salinus Choi et al. 2007

strain designation: CL-SP27

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
31863negative2.75 µm1.05 µmrod-shapedno
122385negativerod-shapedno

colony morphology

  • @ref: 19056
  • incubation period: 2-3 days

pigmentation

  • @ref: 31863
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
19056BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: 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
37760Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
122385CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
19056positivegrowth30mesophilic
31863positivegrowth10-35
31863positiveoptimum32.5mesophilic
37760positivegrowth30mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepH
31863positivegrowth07-08
31863positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31863aerobe
122385facultative anaerobe

halophily

@refsaltgrowthtested relationconcentration
31863NaClpositivegrowth01-10 %
31863NaClpositiveoptimum5.5 %

observation

  • @ref: 67770
  • observation: quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3186329016arginine+carbon source
3186317057cellobiose+carbon source
3186316947citrate+carbon source
3186316236ethanol+carbon source
3186315740formate+carbon source
3186328757fructose+carbon source
3186325017leucine+carbon source
3186329864mannitol+carbon source
3186317268myo-inositol+carbon source
31863506227N-acetylglucosamine+carbon source
3186318257ornithine+carbon source
3186315361pyruvate+carbon source
3186316634raffinose+carbon source
3186330911sorbitol+carbon source
3186330031succinate+carbon source
3186353426tween 80+carbon source
3186316199urea+carbon source
3186318222xylose+carbon source
318634853esculin+hydrolysis
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose+builds acid from
6837128053melibiose-builds acid from
6837117716lactose+builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
6837117814salicin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
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
12238517632nitrate+reduction
12238516301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12238535581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
19056catalase+1.11.1.6
19056cytochrome-c oxidase+1.9.3.1
31863catalase+1.11.1.6
31863cytochrome oxidase+1.9.3.1
31863urease+3.5.1.5
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
122385oxidase-
122385catalase+1.11.1.6
122385urease+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
122385-+++-+-------+------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
19056-----+-++-----------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122385+/---------+/-++------------+/--+++-+--------+/---------+/-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
19056hypersaline water from solar salternRepublic of KoreaKORAsia
67770Hypersaline water from a solar salternRepublic of KoreaKORAsia
122385Environment, Hypersaline water from a solar salternAtlantic OceanSargasso Sea

isolation source categories

Cat1Cat2
#Environmental#Aquatic
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_1925.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_1076;97_1256;98_1510;99_1925&stattab=map
  • Last taxonomy: Maribius
  • 16S sequence: AY906863
  • Sequence Identity:
  • Total samples: 2544
  • soil counts: 183
  • aquatic counts: 2211
  • animal counts: 107
  • plant counts: 43

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
190561Risk group (German classification)
1223851Risk group (French classification)

Sequence information

16S sequences

  • @ref: 19056
  • description: Maribius salinus strain CL-SP27 16S ribosomal RNA gene, partial sequence
  • accession: AY906863
  • length: 1385
  • database: ena
  • NCBI tax ID: 313368

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Maribius salinus strain DSM 26892313368.3wgspatric313368
66792Maribius salinus DSM 268922619618996draftimg313368
67770Palleronia salina DSM 26892GCA_900141995scaffoldncbi313368

GC content

@refGC-contentmethod
1905670.0high performance liquid chromatography (HPLC)
3186370
6777070high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno98.674yes
anaerobicno97.332yes
halophileyes75.898no
spore-formingno96.026no
glucose-utilyes83.254yes
flagellatedno83.959yes
aerobicyes90.405yes
thermophileno97.089yes
motileyes58.388no
glucose-fermentno91.396yes

External links

@ref: 19056

culture collection no.: DSM 26892, JCM 13037, KCCM 42113, CIP 109545, CECT 7800

straininfo link

  • @ref: 87462
  • straininfo: 297248

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17267963Maribius salinus gen. nov., sp. nov., isolated from a solar saltern and Maribius pelagius sp. nov., cultured from the Sargasso Sea, belonging to the Roseobacter clade.Choi DH, Cho JC, Lanoil BD, Giovannoni SJ, Cho BCInt J Syst Evol Microbiol10.1099/ijs.0.64552-02007Anti-Bacterial Agents/pharmacology, Bacterial Typing Techniques, Base Composition, Carbohydrate Metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis/chemistry, Genes, rRNA/genetics, Korea, Molecular Sequence Data, Movement, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Roseobacter/*classification/cytology/*isolation & purification/physiology, Seawater/*microbiology, Sequence Analysis, DNA, Water MicrobiologyGenetics
Phylogeny22685108Profundibacterium mesophilum gen. nov., sp. nov., a novel member in the family Rhodobacteraceae isolated from deep-sea sediment in the Red Sea, Saudi Arabia.Lai PY, Miao L, Lee OO, Liu LL, Zhou XJ, Xu Y, Al-Suwailem A, Qian PYInt J Syst Evol Microbiol10.1099/ijs.0.041525-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Indian Ocean, Molecular Sequence Data, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Saudi Arabia, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/analysisGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
19056Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26892)https://www.dsmz.de/collection/catalogue/details/culture/DSM-26892
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
31863Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2812328776041
37760Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7300
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 updates33211880Nucleic Acids Res. 49: D498-D508 2020
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
87462Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297248.1StrainInfo: A central database for resolving microbial strain identifiers
122385Curators of the CIPCollection of Institut Pasteur (CIP 109545)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109545