Strain identifier
BacDive ID: 23213
Type strain: 
Species: Pseudomonas arsenicoxydans
Strain Designation: VC-1
Strain history: <- CCUG <- R. Roselló-Mora, CSIC-UIB, Islas Baleares, Spain <- V. L. Campos et al., Microbiology Department, Concéption University, Chile
NCBI tax ID(s): 702115 (species)
version 8.1 (current version)
General
@ref: 19110
BacDive-ID: 23213
DSM-Number: 27171
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile
description: Pseudomonas arsenicoxydans VC-1 is an aerobe, mesophilic, motile bacterium that was isolated from sediment.
NCBI tax id
- NCBI tax id: 702115
- Matching level: species
strain history
- @ref: 19110
- history: <- CCUG <- R. Roselló-Mora, CSIC-UIB, Islas Baleares, Spain <- V. L. Campos et al., Microbiology Department, Concéption University, Chile
doi: 10.13145/bacdive23213.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Pseudomonadales
- family: Pseudomonadaceae
- genus: Pseudomonas
- species: Pseudomonas arsenicoxydans
- full scientific name: Pseudomonas arsenicoxydans Campos et al. 2011
@ref: 19110
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas arsenicoxydans
full scientific name: Pseudomonas arsenicoxydans Campos et al. 2011
strain designation: VC-1
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 97.954 | |
| 69480 | 99.997 | negative |
multimedia
- @ref: 19110
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_27171.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 19110 | REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) | yes | https://mediadive.dsmz.de/medium/830c | Name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 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 |
| 19110 | REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) | yes | https://mediadive.dsmz.de/medium/1a | Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 19110 | positive | growth | 28 | mesophilic |
| 61627 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 61627
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.962 |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 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 |
|---|---|---|---|
| 68369 | cytochrome oxidase | + | 1.9.3.1 |
| 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 | OX |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 19110 | - | - | - | + | - | - | - | - | + | + | + | + | + | - | + | + | - | + | + | - | + |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 19110 | sediment | Atacama Desert, Camarones Valley | Chile | CHL | Middle and South America | -18.95 | -69.5 |
| 61627 | Sediment | Atacama Desert,Camarones River | Chile | CHL | Middle and South America |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Sediment |
| #Environmental | #Terrestrial | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_555.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_98;99_555&stattab=map
- Last taxonomy: Pseudomonas
- 16S sequence: FN645213
- Sequence Identity:
- Total samples: 42314
- soil counts: 16904
- aquatic counts: 8731
- animal counts: 11521
- plant counts: 5158
Safety information
risk assessment
- @ref: 19110
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 19110
- description: Pseudomonas arsenicoxydans partial 16S rRNA gene, type strain VC-1T
- accession: FN645213
- length: 1435
- database: ena
- NCBI tax ID: 702115
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Pseudomonas arsenicoxydans CECT 7543 | GCA_900103875 | chromosome | ncbi | 702115 |
| 66792 | Pseudomonas arsenicoxydans strain CECT 7543 | 702115.3 | complete | patric | 702115 |
| 66792 | Pseudomonas arsenicoxydans CECT 7543 | 2636416065 | draft | img | 702115 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 98.42 | no |
| anaerobic | no | 97.648 | yes |
| halophile | no | 87.672 | no |
| spore-forming | no | 95.549 | no |
| glucose-util | yes | 95.348 | no |
| flagellated | yes | 79.632 | no |
| thermophile | no | 99.893 | yes |
| motile | yes | 92.011 | no |
| aerobic | yes | 92.487 | yes |
| glucose-ferment | no | 90.008 | yes |
External links
@ref: 19110
culture collection no.: DSM 27171, CCUG 58201, CECT 7543
straininfo link
- @ref: 87441
- straininfo: 371225
literature
- topic: Phylogeny
- Pubmed-ID: 20409659
- title: Pseudomonas arsenicoxydans sp nov., an arsenite-oxidizing strain isolated from the Atacama desert.
- authors: Campos VL, Valenzuela C, Yarza P, Kampfer P, Vidal R, Zaror C, Mondaca MA, Lopez-Lopez A, Rossello-Mora R
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2010.02.007
- year: 2010
- mesh: Aerobiosis, Arsenites/*metabolism, Bacterial Proteins/metabolism, Bacterial Typing Techniques, Catalase/metabolism, Chile, Cluster Analysis, DNA Fingerprinting, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Flagella/physiology, Locomotion, Molecular Sequence Data, Oxidation-Reduction, Oxidoreductases/metabolism, Phylogeny, Pseudomonas/*classification/genetics/*isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 19110 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27171) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27171 | |
| 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 | |
| 61627 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 58201) | https://www.ccug.se/strain?id=58201 | |
| 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) | |
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |
| 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 | |
| 87441 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID371225.1 | StrainInfo: A central database for resolving microbial strain identifiers |