Strain identifier
BacDive ID: 5587
Type strain: 
Species: Flavobacterium dankookense
Strain Designation: ARSA-19, ARSA-19(T)
Strain history: <- TY Ahn, Dankook Univ.
NCBI tax ID(s): 706186 (species)
version 8.1 (current version)
General
@ref: 18084
BacDive-ID: 5587
DSM-Number: 25687
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Flavobacterium dankookense ARSA-19 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from freshwater lake.
NCBI tax id
- NCBI tax id: 706186
- Matching level: species
strain history
| @ref | history |
|---|---|
| 18084 | <- KACC <- T.-Y. Ahn, Dankook Univ., Cheonan, Korea; ARSA-19 |
| 67770 | T.-Y. Ahn ARSA-19. |
| 67771 | <- TY Ahn, Dankook Univ. |
doi: 10.13145/bacdive5587.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Flavobacterium
- species: Flavobacterium dankookense
- full scientific name: Flavobacterium dankookense Lee et al. 2012
@ref: 18084
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Flavobacterium
species: Flavobacterium dankookense
full scientific name: Flavobacterium dankookense Lee et al. 2012
strain designation: ARSA-19, ARSA-19(T)
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 30293 | negative | 1 µm | 0.5 µm | rod-shaped | no | |
| 67771 | negative | |||||
| 69480 | no | 93.848 | ||||
| 69480 | negative | 99.994 |
pigmentation
- @ref: 30293
- production: yes
Culture and growth conditions
culture medium
- @ref: 18084
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 18084 | positive | growth | 25 | mesophilic |
| 30293 | positive | growth | 04-37 | |
| 30293 | positive | optimum | 25 | mesophilic |
| 67770 | positive | growth | 25 | mesophilic |
| 67771 | positive | growth | 25 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 30293 | positive | growth | 6.5-9.5 | alkaliphile |
| 30293 | positive | optimum | 7.75 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 30293 | aerobe |
| 67771 | aerobe |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 100 |
halophily
- @ref: 30293
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-1 %
observation
- @ref: 67770
- observation: quinones: MK-6
metabolite utilization
- @ref: 30293
- Chebi-ID: 27689
- metabolite: decanoate
- utilization activity: +
- kind of utilization tested: carbon source
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30293 | acid phosphatase | + | 3.1.3.2 |
| 30293 | alkaline phosphatase | + | 3.1.3.1 |
| 30293 | catalase | + | 1.11.1.6 |
| 30293 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 18084 | freshwater lake | Cheonan city, Cheon-ho reservoir at Dankook University (36° 49' N 127° 10' E) | Republic of Korea | KOR | Asia | 36.8167 | 127.167 |
| 67770 | Freshwater reservoir in Cheonan | Republic of Korea | KOR | Asia | |||
| 67771 | From freshwater | Cheonan | Republic of Korea | KOR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Freshwater |
| #Environmental | #Aquatic | #Lake (large) |
Safety information
risk assessment
- @ref: 18084
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 18084
- description: Flavobacterium dankookense strain ARSA-19 16S ribosomal RNA gene, partial sequence
- accession: GU295970
- length: 1406
- database: ena
- NCBI tax ID: 706186
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Flavobacterium dankookense strain DSM 25687 | 706186.4 | wgs | patric | 706186 |
| 66792 | Flavobacterium dankookense DSM 25687 | 2695421041 | draft | img | 706186 |
| 67770 | Flavobacterium dankookense DSM 25687 | GCA_004362665 | scaffold | ncbi | 706186 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 18084 | 33.3 | high performance liquid chromatography (HPLC) |
| 30293 | 33.3 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 98.831 | yes |
| anaerobic | no | 99.321 | yes |
| halophile | no | 96.683 | yes |
| spore-forming | no | 95.528 | no |
| glucose-util | yes | 81.18 | no |
| thermophile | no | 95.087 | yes |
| flagellated | no | 95.603 | yes |
| motile | no | 93.413 | yes |
| aerobic | yes | 86.396 | yes |
| glucose-ferment | no | 92.209 | no |
External links
@ref: 18084
culture collection no.: DSM 25687, JCM 17065, KACC 14968, KCTC 23179
straininfo link
- @ref: 75069
- straininfo: 406856
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 22140162 | Flavobacterium dankookense sp. nov., isolated from a freshwater reservoir, and emended descriptions of Flavobacterium cheonanense, F. chungnamense, F. koreense and F. aquatile. | Lee S, Weon HY, Han K, Ahn TY | Int J Syst Evol Microbiol | 10.1099/ijs.0.032698-0 | 2011 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Flavobacterium/*classification/genetics/isolation & purification, Fresh Water/*microbiology, Korea, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis | Genetics |
| Phylogeny | 26530258 | Flavobacterium paronense sp. nov., isolated from freshwater of an artificial vegetated island. | Joung Y, Kang H, Kim H, Kim TS, Han JH, Kim SB, Ahn TS, Joh K | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000727 | 2015 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Fresh Water/*microbiology, Islands, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Spermidine/analogs & derivatives/chemistry, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 31237532 | Flavobacterium silvisoli sp. nov., isolated from forest soil. | Chaudhary DK, Dahal RH, Kim J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003551 | 2019 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/isolation & purification, *Forests, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology | Transcriptome |
| Phylogeny | 33709898 | Flavobacterium phycosphaerae sp. nov. isolated from the phycosphere of Microcystis aeruginosa. | Kim M, Lee BH, Lee KE, Park W | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004735 | 2021 |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 18084 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25687) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25687 | ||||
| 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 | ||||
| 30293 | 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 | 26634 | 28776041 | ||
| 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) | ||||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |||||
| 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 | ||||
| 75069 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID406856.1 | StrainInfo: A central database for resolving microbial strain identifiers |