Strain identifier
BacDive ID: 24507
Type strain:
Species: Cognatishimia maritima
Strain Designation: GSW-6, GSW-M6
Strain history: <- KCTC <- J.-H. Yoon, KRIBB; GSW-M6
NCBI tax ID(s): 870908 (species)
General
@ref: 20862
BacDive-ID: 24507
DSM-Number: 28223
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Cognatishimia maritima GSW-6 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sea water.
NCBI tax id
- NCBI tax id: 870908
- Matching level: species
strain history
- @ref: 20862
- history: <- KCTC <- J.-H. Yoon, KRIBB; GSW-M6
doi: 10.13145/bacdive24507.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Roseobacteraceae
- genus: Cognatishimia
- species: Cognatishimia maritima
- full scientific name: Cognatishimia maritima (Park et al. 2012) Wirth and Whitman 2018
synonyms
@ref synonym 20215 Thalassovita maritima 20215 Thalassobius maritimus
@ref: 20862
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Cognatishimia
species: Cognatishimia maritima
full scientific name: Cognatishimia maritima (Park et al. 2012) Wirth and Whitman 2018
strain designation: GSW-6, GSW-M6
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
30084 | negative | 1.0-6.0 µm | 0.4-0.8 µm | rod-shaped | yes | |
69480 | negative | 99.998 |
colony morphology
@ref | incubation period |
---|---|
20862 | 3-7 days |
62184 | 2 days |
pigmentation
- @ref: 30084
- production: yes
Culture and growth conditions
culture medium
- @ref: 20862
- 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 |
---|---|---|---|---|
20862 | positive | growth | 25 | mesophilic |
30084 | positive | growth | 10-37 | |
30084 | positive | optimum | 30 | mesophilic |
62184 | positive | growth | 30 | mesophilic |
culture pH
- @ref: 30084
- ability: positive
- type: optimum
- pH: 7.0-8.0
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
30084 | aerobe |
62184 | aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.998 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
30084 | NaCl | positive | growth | 0-7 % |
30084 | NaCl | positive | optimum | 2 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30084 | 22599 | arabinose | + | carbon source |
30084 | 17057 | cellobiose | + | carbon source |
30084 | 16947 | citrate | + | carbon source |
30084 | 28757 | fructose | + | carbon source |
30084 | 17234 | glucose | + | carbon source |
30084 | 37684 | mannose | + | carbon source |
30084 | 17814 | salicin | + | carbon source |
30084 | 17632 | nitrate | + | reduction |
68369 | 25115 | malate | - | assimilation |
68369 | 17128 | adipate | - | assimilation |
68369 | 27689 | decanoate | - | assimilation |
68369 | 24265 | gluconate | - | assimilation |
68369 | 17306 | maltose | - | assimilation |
68369 | 59640 | N-acetylglucosamine | - | assimilation |
68369 | 16899 | D-mannitol | - | assimilation |
68369 | 16024 | D-mannose | - | assimilation |
68369 | 30849 | L-arabinose | - | assimilation |
68369 | 17634 | D-glucose | - | assimilation |
68369 | 5291 | gelatin | - | hydrolysis |
68369 | 4853 | esculin | - | hydrolysis |
68369 | 16199 | urea | - | hydrolysis |
68369 | 29016 | arginine | - | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
68369 | 17632 | nitrate | - | reduction |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
20862 | catalase | + | 1.11.1.6 |
20862 | cytochrome-c oxidase | + | 1.9.3.1 |
30084 | alkaline phosphatase | + | 3.1.3.1 |
68369 | gelatinase | - | |
68369 | beta-glucosidase | - | 3.2.1.21 |
68369 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
20862 | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
20862 | sea water | Gheje Island | Republic of Korea | KOR | Asia | |
62184 | Seawater | Geoje Island | Republic of Korea | KOR | Asia | 2008 |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
taxonmaps
- @ref: 69479
- File name: preview.99_2540.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_777;97_1220;98_1466;99_2540&stattab=map
- Last taxonomy: Cognatishimia maritima
- 16S sequence: HM748766
- Sequence Identity:
- Total samples: 479
- soil counts: 7
- aquatic counts: 462
- animal counts: 9
- plant counts: 1
Safety information
risk assessment
- @ref: 20862
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20862
- description: Thalassobius maritimus strain GSW-M6 16S ribosomal RNA gene, partial sequence
- accession: HM748766
- length: 1384
- database: ena
- NCBI tax ID: 870908
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Cognatishimia maritima DSM 28223 | GCA_900129685 | scaffold | ncbi | 870908 |
66792 | Thalassobius maritimus strain DSM 28223 | 870908.3 | wgs | patric | 870908 |
66792 | Cognatishimia maritima DSM 28223 | 2617270829 | draft | img | 870908 |
GC content
- @ref: 30084
- GC-content: 57
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 60.648 | yes |
flagellated | no | 76.335 | no |
gram-positive | no | 98.476 | yes |
anaerobic | no | 99.195 | yes |
aerobic | yes | 93.963 | no |
halophile | yes | 75.266 | no |
spore-forming | no | 96.852 | no |
thermophile | no | 97.786 | yes |
glucose-util | yes | 76.849 | no |
glucose-ferment | no | 91.561 | no |
External links
@ref: 20862
culture collection no.: DSM 28223, CCUG 60021, KCTC 23347
straininfo link
- @ref: 88365
- straininfo: 379060
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 21257694 | Thalassobius maritimus sp. nov., isolated from seawater. | Park S, Lee MH, Lee JS, Oh TK, Yoon JH | Int J Syst Evol Microbiol | 10.1099/ijs.0.029199-0 | 2011 | Aerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Korea, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Seawater/*microbiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature | Genetics |
Phylogeny | 23070461 | Thalassococcus lentus sp. nov., an alphaproteobacterium isolated from seawater of a seaweed farm. | Park S, Jung YT, Kim SI, Yoon JH | Antonie Van Leeuwenhoek | 10.1007/s10482-012-9826-8 | 2012 | Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Seawater/*microbiology, Seaweed/growth & development, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature, Ubiquinone/analysis | Genetics |
Reference
@id | authors | title | doi/url | catalogue | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | ||||
20862 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28223 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28223) | ||||
30084 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 26441 | 28776041 | ||
62184 | Curators of the CCUG | https://www.ccug.se/strain?id=60021 | Culture Collection University of Gothenburg (CCUG) (CCUG 60021) | ||||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | ||||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
68369 | Automatically annotated from API 20NE | ||||||
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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | ||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | ||||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | ||||
88365 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID379060.1 |