Strain identifier

BacDive ID: 23233

Type strain: Yes

Species: Citreimonas salinaria

Strain Designation: CL-SP20

Strain history: CIP <- 2007, JCM <- 2005, D. H. Choi, Seoul Nat. Univ., Seoul, Korea: strain CL-SP20

NCBI tax ID(s): 321339 (species)

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General

@ref: 19057

BacDive-ID: 23233

DSM-Number: 26880

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

description: Citreimonas salinaria CL-SP20 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from hypersaline water from solar saltern.

NCBI tax id

  • NCBI tax id: 321339
  • Matching level: species

strain history

@refhistory
19057<- JCM <- D. H. Choi; CL-SP20
67770D. H. Choi CL-SP20.
122382CIP <- 2007, JCM <- 2005, D. H. Choi, Seoul Nat. Univ., Seoul, Korea: strain CL-SP20

doi: 10.13145/bacdive23233.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Citreimonas
  • species: Citreimonas salinaria
  • full scientific name: Citreimonas salinaria Choi and Cho 2006

@ref: 19057

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Citreimonas

species: Citreimonas salinaria

full scientific name: Citreimonas salinaria Choi and Cho 2006

strain designation: CL-SP20

type strain: yes

Morphology

cell morphology

  • @ref: 122382
  • gram stain: negative
  • cell shape: oval-shaped
  • motility: no

colony morphology

  • @ref: 19057
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
19057BACTO 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
39785Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
122382CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
19057positivegrowth30mesophilic
39785positivegrowth30mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 122382
  • oxygen tolerance: obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836916899D-mannitol-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin+hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction
12238217632nitrate+reduction
12238216301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12238235581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
19057catalase+1.11.1.6
19057cytochrome-c oxidase+1.9.3.1
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
122382oxidase+
122382catalase+1.11.1.6
122382urease-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
122382--++-+----++----+---

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
19057+----+++--+/--+/-----+/---+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
19057hypersaline water from solar salternSeosinRepublic of KoreaKORAsia
67770Hypersaline water from a solar saltern in SeosinRepublic of KoreaKORAsia
122382Environment, Hypersaline water from a solar salternSeosinRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2
#Environmental#Aquatic
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_181340.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_2262;97_55265;98_73142;99_181340&stattab=map
  • Last taxonomy: Citreimonas salinaria subclade
  • 16S sequence: AY962295
  • Sequence Identity:
  • Total samples: 114
  • soil counts: 8
  • aquatic counts: 79
  • animal counts: 26
  • plant counts: 1

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
190571Risk group (German classification)
1223821Risk group (French classification)

Sequence information

16S sequences

  • @ref: 19057
  • description: Citreimonas salinaria strain CL-SP20 16S ribosomal RNA gene, partial sequence
  • accession: AY962295
  • length: 1401
  • database: ena
  • NCBI tax ID: 321339

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Citreimonas salinaria strain DSM 26880321339.5wgspatric321339
66792Citreimonas salinaria DSM 268802693429906draftimg321339
67770Citreimonas salinaria DSM 26880GCA_900107235scaffoldncbi321339

GC content

  • @ref: 19057
  • GC-content: 67.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno97.892no
anaerobicno95.317no
halophileyes75.93no
spore-formingno94.953no
glucose-utilyes83.352yes
motileno57.99no
aerobicyes82.071no
flagellatedno86.396no
thermophileno93.63yes
glucose-fermentno90.529no

External links

@ref: 19057

culture collection no.: DSM 26880, JCM 13036, KCCM 42116, CIP 109491

straininfo link

@refstraininfo
87459293511
87460404758

literature

  • topic: Phylogeny
  • Pubmed-ID: 17158980
  • title: Citreimonas salinaria gen. nov., sp. nov., a member of the Roseobacter clade isolated from a solar saltern.
  • authors: Choi DH, Cho BC
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64373-0
  • year: 2006
  • mesh: Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Geologic Sediments/*microbiology, Korea, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Roseobacter/*classification/genetics/isolation & purification/physiology, Seawater/*microbiology, Sequence Analysis, DNA, *Sodium Chloride, Sunlight
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
19057Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26880)https://www.dsmz.de/collection/catalogue/details/culture/DSM-26880
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
39785Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7241
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/
68369Automatically annotated from API 20NE
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
87459Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID293511.1StrainInfo: A central database for resolving microbial strain identifiers
87460Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID404758.1StrainInfo: A central database for resolving microbial strain identifiers
122382Curators of the CIPCollection of Institut Pasteur (CIP 109491)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109491