Strain identifier
BacDive ID: 2877
Type strain: 
Species: Colwellia aestuarii
Strain Designation: SMK-10
Strain history: <- JH Yoon, KRIBB
NCBI tax ID(s): 329993 (species)
version 8.1 (current version)
General
@ref: 6892
BacDive-ID: 2877
DSM-Number: 17314
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Colwellia aestuarii SMK-10 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from Saemankum tidal flat.
NCBI tax id
- NCBI tax id: 329993
- Matching level: species
strain history
| @ref | history |
|---|---|
| 6892 | <- J.-H. Yoon; SMK10 <- S.-Y. Jung |
| 67771 | <- JH Yoon, KRIBB |
doi: 10.13145/bacdive2877.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Alteromonadales
- family: Colwelliaceae
- genus: Colwellia
- species: Colwellia aestuarii
- full scientific name: Colwellia aestuarii Jung et al. 2006
synonyms
- @ref: 20215
- synonym: Cognaticolwellia aestuarii
@ref: 6892
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Alteromonadales
family: Colwelliaceae
genus: Colwellia
species: Colwellia aestuarii
full scientific name: Colwellia aestuarii Jung et al. 2006
strain designation: SMK-10
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility |
|---|---|---|---|---|---|
| 31623 | negative | 1.8-3.1 µm | 0.4-0.5 µm | rod-shaped | yes |
| 67771 | negative |
pigmentation
- @ref: 31623
- production: yes
Culture and growth conditions
culture medium
- @ref: 6892
- 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 |
|---|---|---|---|---|
| 6892 | positive | growth | 25-28 | mesophilic |
| 31623 | positive | growth | 04-32 | |
| 31623 | positive | optimum | 25-30 | mesophilic |
| 67771 | positive | growth | 25 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 31623 | positive | growth | 05-08 |
| 31623 | positive | optimum | 07-08 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 31623 | anaerobe |
| 67771 | aerobe |
spore formation
- @ref: 31623
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 31623 | NaCl | positive | growth | 02-06 % |
| 31623 | NaCl | positive | optimum | 02-03 % |
observation
- @ref: 31623
- observation: aggregates in chains
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 31623 | 17814 | salicin | + | carbon source |
| 31623 | 18222 | xylose | + | carbon source |
enzymes
- @ref: 31623
- value: alkaline phosphatase
- activity: +
- ec: 3.1.3.1
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 6892 | Saemankum tidal flat | Pyunsan, Saemankum | Republic of Korea | KOR | Asia |
| 67771 | From gaetbul | Republic of Korea | KOR | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Tidal flat
taxonmaps
- @ref: 69479
- File name: preview.99_1821.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_82;96_438;97_1201;98_1440;99_1821&stattab=map
- Last taxonomy: Colwellia aestuarii
- 16S sequence: DQ055844
- Sequence Identity:
- Total samples: 360
- soil counts: 6
- aquatic counts: 335
- animal counts: 17
- plant counts: 2
Safety information
risk assessment
- @ref: 6892
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6892
- description: Colwellia aestuarii strain SMK-10 16S ribosomal RNA gene, partial sequence
- accession: DQ055844
- length: 1496
- database: ena
- NCBI tax ID: 329993
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Cognaticolwellia aestuarii KCTC 12480 | GCA_002000025 | scaffold | ncbi | 329993 |
| 66792 | Colwellia aestuarii strain KCTC 12480 | 329993.3 | wgs | patric | 329993 |
GC content
- @ref: 31623
- GC-content: 39.3
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | yes | 90.615 | no |
| gram-positive | no | 98.971 | yes |
| anaerobic | no | 96.131 | no |
| aerobic | yes | 79.401 | no |
| halophile | yes | 63.807 | no |
| spore-forming | no | 96.302 | no |
| glucose-util | yes | 81.408 | no |
| thermophile | no | 99.461 | no |
| glucose-ferment | no | 80.909 | no |
| motile | yes | 90.447 | yes |
External links
@ref: 6892
culture collection no.: DSM 17314, KCTC 12480, SMK 10
straininfo link
- @ref: 72401
- straininfo: 289857
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 16403863 | Colwellia aestuarii sp. nov., isolated from a tidal flat sediment in Korea. | Jung SY, Oh TK, Yoon JH | Int J Syst Evol Microbiol | 10.1099/ijs.0.63920-0 | 2006 | Alteromonas/chemistry/*classification/isolation & purification/physiology, Base Composition, DNA, Bacterial/genetics, Fatty Acids, Geologic Sediments/*microbiology, Korea, Molecular Sequence Data, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, *Seawater, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Species Specificity, Temperature, Ubiquinone | Genetics |
| Phylogeny | 20495042 | Colwellia chukchiensis sp. nov., a psychrotolerant bacterium isolated from the Arctic Ocean. | Yu Y, Li HR, Zeng YX | Int J Syst Evol Microbiol | 10.1099/ijs.0.022111-0 | 2010 | Alteromonadaceae/*classification/genetics/*isolation & purification/physiology, Anaerobiosis, Arctic Regions, Bacterial Typing Techniques, Base Composition, Cluster Analysis, Cold Temperature, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Oceans and Seas, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA | Genetics |
| Phylogeny | 25201915 | Colwellia aquaemaris sp. nov., isolated from the Cynoglossus semilaevis culture tank in a recirculating mariculture system. | Liu Y, Liu LZ, Zhong ZP, Zhou YG, Liu Y, Liu ZP | Int J Syst Evol Microbiol | 10.1099/ijs.0.063305-0 | 2014 | Alteromonadaceae/*classification/genetics/isolation & purification, Aquaculture, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 28631597 | Colwellia agarivorans sp. nov., an agar-digesting marine bacterium isolated from coastal seawater. | Xu ZX, Zhang HX, Han JR, Dunlap CA, Rooney AP, Mu DS, Du ZJ | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001897 | 2017 | Alteromonadaceae/*classification/genetics/isolation & purification, Aquaculture, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, 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 |
|---|---|---|---|---|---|---|
| 6892 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17314) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17314 | |||
| 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 | |||
| 31623 | 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 | 27909 | 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) | |||
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
| 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 | |||
| 72401 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID289857.1 | StrainInfo: A central database for resolving microbial strain identifiers |