Strain identifier
BacDive ID: 17787
Type strain: 
Species: Salinisphaera dokdonensis
Strain Designation: CL-ES53
Strain history: <- B. C. Cho, Seoul Natl. Univ., Republic of Korea; CL-ES53
NCBI tax ID(s): 454598 (species)
version 8.1 (current version)
General
@ref: 8167
BacDive-ID: 17787
DSM-Number: 19549
keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Salinisphaera dokdonensis CL-ES53 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from surface seawater.
NCBI tax id
- NCBI tax id: 454598
- Matching level: species
strain history
- @ref: 8167
- history: <- B. C. Cho, Seoul Natl. Univ., Republic of Korea; CL-ES53
doi: 10.13145/bacdive17787.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Nevskiales
- family: Salinisphaeraceae
- genus: Salinisphaera
- species: Salinisphaera dokdonensis
- full scientific name: Salinisphaera dokdonensis Bae et al. 2010
@ref: 8167
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Salinisphaerales, not validated
family: Salinisphaeraceae
genus: Salinisphaera
species: Salinisphaera dokdonensis
full scientific name: Salinisphaera dokdonensis Bae et al. 2010
strain designation: CL-ES53
type strain: yes
Morphology
cell morphology
- @ref: 29276
- gram stain: negative
- cell length: 0.7 µm
- cell width: 0.45 µm
- cell shape: rod-shaped
- motility: yes
Culture and growth conditions
culture medium
- @ref: 8167
- name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514
- composition: Name: 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
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 8167 | positive | growth | 28 | mesophilic |
| 29276 | positive | growth | 05-40 | |
| 29276 | positive | optimum | 25 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 29276 | positive | growth | 5.2-8.8 | alkaliphile |
| 29276 | positive | optimum | 6.75 |
Physiology and metabolism
oxygen tolerance
- @ref: 29276
- oxygen tolerance: aerobe
spore formation
- @ref: 29276
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 29276 | NaCl | positive | growth | 04-21 % |
| 29276 | NaCl | positive | optimum | 10 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29276 | 17234 | glucose | + | carbon source |
| 29276 | 17754 | glycerol | + | carbon source |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 29276 | acid phosphatase | + | 3.1.3.2 |
| 29276 | catalase | + | 1.11.1.6 |
| 29276 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 8167
- sample type: surface seawater
- geographic location: East Sea, vicinity of Dokdo Island
- country: Republic of Korea
- origin.country: KOR
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Environmental | #Aquatic | #Surface water |
taxonmaps
- @ref: 69479
- File name: preview.99_98166.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_357;96_1636;97_26769;98_67206;99_98166&stattab=map
- Last taxonomy: Salinisphaera dokdonensis subclade
- 16S sequence: EF988634
- Sequence Identity:
- Total samples: 134
- aquatic counts: 98
- animal counts: 36
Safety information
risk assessment
- @ref: 8167
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 8167
- description: Salinisphaera dokdonensis CL-ES53 16S ribosomal RNA gene, partial sequence
- accession: EF988634
- length: 1403
- database: ena
- NCBI tax ID: 1304272
GC content
| @ref | GC-content | method |
|---|---|---|
| 8167 | 64.9 | high performance liquid chromatography (HPLC) |
| 29276 | 64.9 |
External links
@ref: 8167
culture collection no.: DSM 19549, KCCM 90064
straininfo link
- @ref: 86778
- straininfo: 406365
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 19656943 | Salinisphaera dokdonensis sp. nov., isolated from surface seawater. | Bae GD, Hwang CY, Kim HM, Cho BC | Int J Syst Evol Microbiol | 10.1099/ijs.0.010058-0 | 2009 | DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Gammaproteobacteria/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology | Metabolism |
| Phylogeny | 21984663 | Salinisphaera orenii sp. nov., isolated from a solar saltern. | Park SJ, Cha IT, Kim SJ, Shin KS, Hong Y, Roh DH, Rhee SK | Int J Syst Evol Microbiol | 10.1099/ijs.0.028647-0 | 2011 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Gammaproteobacteria/*classification/genetics/isolation & purification, Geologic Sediments/microbiology, Molecular Sequence Data, Phenotype, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/analysis, *Water Microbiology | Genetics |
| Phylogeny | 22058321 | Salinisphaera halophila sp. nov., a moderately halophilic bacterium isolated from brine of a salt well. | Zhang YJ, Tang SK, Shi R, Klenk HP, Chen C, Yang LL, Zhou Y, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.035584-0 | 2011 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Gammaproteobacteria/*classification/genetics/isolation & purification, Molecular Sequence Data, *Phylogeny, Quinones/analysis, Salts/analysis, Sequence Analysis, DNA, *Water Microbiology | Genetics |
| Phylogeny | 29458504 | Salinisphaera aquimarina sp. nov., isolated from seawater. | Tang L, Zhang Z, Xie R, Jiao N, Zhang Y | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002638 | 2018 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistry | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 8167 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19549) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19549 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 29276 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 25693 | 28776041 | |
| 69479 | João 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 | |||
| 86778 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID406365.1 | StrainInfo: A central database for resolving microbial strain identifiers |