Strain identifier
BacDive ID: 5645
Type strain:
Species: Salegentibacter salinarum
Strain Designation: ISL-4
Strain history: <- JH Yoon, KRIBB
NCBI tax ID(s): 447422 (species)
General
@ref: 16842
BacDive-ID: 5645
DSM-Number: 23400
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Salegentibacter salinarum ISL-4 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from marine solar saltern.
NCBI tax id
- NCBI tax id: 447422
- Matching level: species
strain history
@ref | history |
---|---|
16842 | <- CCUG <- J. H. Yoon, Korea Res. Inst. Biosci. & Biotechnol. (KRIBB), Taejon, South Korea |
67771 | <- JH Yoon, KRIBB |
doi: 10.13145/bacdive5645.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Salegentibacter
- species: Salegentibacter salinarum
- full scientific name: Salegentibacter salinarum Yoon et al. 2008
@ref: 16842
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Salegentibacter
species: Salegentibacter salinarum
full scientific name: Salegentibacter salinarum Yoon et al. 2008
strain designation: ISL-4
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
32408 | negative | 3.25 µm | 0.65 µm | rod-shaped | no | |
67771 | rod-shaped | no | ||||
67771 | negative | |||||
69480 | negative | 99.989 |
colony morphology
- @ref: 60145
- incubation period: 1-2 days
pigmentation
- @ref: 32408
- production: no
Culture and growth conditions
culture medium
- @ref: 16842
- 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 |
---|---|---|---|---|
16842 | positive | growth | 28 | mesophilic |
32408 | positive | growth | 04-41 | |
32408 | positive | optimum | 30 | mesophilic |
60145 | positive | growth | 30 | mesophilic |
67771 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
32408 | positive | growth | 5.5-8 |
32408 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
32408 | aerobe |
60145 | aerobe |
67771 | aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.971 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
32408 | NaCl | positive | growth | 02-17 % |
32408 | NaCl | positive | optimum | 8 % |
observation
- @ref: 67771
- observation: quinones: MK-6
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
32408 | 17306 | maltose | + | carbon source |
32408 | 37684 | mannose | + | carbon source |
32408 | 15361 | pyruvate | + | carbon source |
32408 | 17814 | salicin | + | carbon source |
32408 | 27082 | trehalose | + | carbon source |
32408 | 4853 | esculin | + | hydrolysis |
enzymes
@ref | value | activity | ec |
---|---|---|---|
32408 | acid phosphatase | + | 3.1.3.2 |
32408 | alkaline phosphatase | + | 3.1.3.1 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
16842 | marine solar saltern | Yellow Sea | Republic of Korea | KOR | Asia | |
60145 | Marine solar saltern | Yellow Sea | Republic of Korea | KOR | Asia | 2005 |
67771 | From saltern field | the Yellow Sea | Republic of Korea | KOR | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Condition | #Saline | |
#Engineered | #Industrial | #Industrial production |
#Environmental | #Terrestrial | #Coast |
Safety information
risk assessment
- @ref: 16842
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16842
- description: Salegentibacter salinarum strain ISL-4 16S ribosomal RNA gene, partial sequence
- accession: EF612764
- length: 1485
- database: ena
- NCBI tax ID: 447422
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Salegentibacter salinarum KCTC 12975 | GCA_002833365 | contig | ncbi | 447422 |
66792 | Salegentibacter salinarum DSM 23400 | GCA_900168115 | scaffold | ncbi | 447422 |
66792 | Salegentibacter salinarum strain DSM 23400 | 447422.4 | wgs | patric | 447422 |
66792 | Salegentibacter salinarum strain KCTC 12975 | 447422.5 | wgs | patric | 447422 |
66792 | Salegentibacter salinarum DSM 23400 | 2595698206 | draft | img | 447422 |
GC content
- @ref: 16842
- GC-content: 37.9
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 87.899 | yes |
flagellated | no | 93.379 | yes |
gram-positive | no | 98.161 | yes |
anaerobic | no | 99.351 | no |
aerobic | yes | 90.781 | yes |
halophile | yes | 69.506 | yes |
spore-forming | no | 93.331 | no |
thermophile | no | 99.451 | no |
glucose-util | yes | 90.732 | no |
glucose-ferment | no | 87.063 | no |
External links
@ref: 16842
culture collection no.: DSM 23400, CCUG 54354, KCTC 12975
straininfo link
- @ref: 75128
- straininfo: 404079
literature
- topic: Phylogeny
- Pubmed-ID: 18218932
- title: Salegentibacter salinarum sp. nov., isolated from a marine solar saltern.
- authors: Yoon JH, Lee MH, Kang SJ, Oh TK
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.65448-0
- year: 2008
- mesh: Base Composition, DNA, Bacterial/analysis, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification/physiology, Genes, rRNA, Geologic Sediments/*microbiology, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, *Sodium Chloride, Species Specificity
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
16842 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23400) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23400 | |||
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 | |||
32408 | 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 | 28632 | 28776041 | |
60145 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 54354) | https://www.ccug.se/strain?id=54354 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
75128 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID404079.1 | StrainInfo: A central database for resolving microbial strain identifiers |