Strain identifier
BacDive ID: 13186
Type strain: 
Species: Halopseudomonas litoralis
Strain Designation: 2SM5
Strain history: <- CECT <- M. J. Pujalte, Univ. Valencia, Spain
NCBI tax ID(s): 797277 (species)
version 8.1 (current version)
General
@ref: 18175
BacDive-ID: 13186
DSM-Number: 26168
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Halopseudomonas litoralis 2SM5 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from seawater.
NCBI tax id
- NCBI tax id: 797277
- Matching level: species
strain history
- @ref: 18175
- history: <- CECT <- M. J. Pujalte, Univ. Valencia, Spain
doi: 10.13145/bacdive13186.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Pseudomonadales
- family: Pseudomonadaceae
- genus: Halopseudomonas
- species: Halopseudomonas litoralis
- full scientific name: Halopseudomonas litoralis (Pascual et al. 2012) Rudra and Gupta 2021
synonyms
@ref synonym 20215 Neopseudomonas litoralis 20215 Pseudomonas litoralis
@ref: 18175
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas litoralis
full scientific name: Pseudomonas litoralis Pascual et al. 2012
strain designation: 2SM5
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 30104 | negative | 0.8-1.9 µm | 0.5-0.9 µm | rod-shaped | yes | |
| 69480 | yes | 94.461 | ||||
| 69480 | negative | 99.995 |
pigmentation
- @ref: 30104
- production: yes
multimedia
- @ref: 18175
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_26168.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 18175
- 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 |
|---|---|---|---|---|
| 18175 | positive | growth | 28 | mesophilic |
| 30104 | positive | growth | 15-37 |
Physiology and metabolism
oxygen tolerance
- @ref: 30104
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.999 |
halophily
- @ref: 30104
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <15 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30104 | 30089 | acetate | + | carbon source |
| 30104 | 16449 | alanine | + | carbon source |
| 30104 | 29987 | glutamate | + | carbon source |
| 30104 | 24996 | lactate | + | carbon source |
| 30104 | 25115 | malate | + | carbon source |
| 30104 | 17272 | propionate | + | carbon source |
| 30104 | 15361 | pyruvate | + | carbon source |
| 30104 | 30031 | succinate | + | carbon source |
| 30104 | 53426 | tween 80 | + | carbon source |
| 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 |
|---|---|---|---|
| 30104 | catalase | + | 1.11.1.6 |
| 30104 | cytochrome oxidase | + | 1.9.3.1 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 18175 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | + | + | - | - | + |
Isolation, sampling and environmental information
isolation
- @ref: 18175
- sample type: seawater
- geographic location: Castellón, Vinaroz
- country: Spain
- origin.country: ESP
- continent: Europe
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
taxonmaps
- @ref: 69479
- File name: preview.99_36057.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_1057;97_1235;98_26584;99_36057&stattab=map
- Last taxonomy: Pseudomonas litoralis subclade
- 16S sequence: FN908483
- Sequence Identity:
- Total samples: 144
- soil counts: 26
- aquatic counts: 21
- animal counts: 96
- plant counts: 1
Safety information
risk assessment
- @ref: 18175
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 18175
- description: Pseudomonas litoralis partial 16S rRNA gene, type strain 2SM5T
- accession: FN908483
- length: 1452
- database: ena
- NCBI tax ID: 797277
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Pseudomonas litoralis CECT 7670 | 2667527220 | draft | img | 797277 |
| 66792 | Halopseudomonas litoralis 2SM5 | GCA_900105005 | chromosome | ncbi | 797277 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 93.238 | no |
| glucose-ferment | no | 90.661 | no |
| flagellated | yes | 84.262 | no |
| gram-positive | no | 98.706 | no |
| anaerobic | no | 97.004 | yes |
| aerobic | yes | 86.963 | yes |
| halophile | yes | 57.669 | no |
| spore-forming | no | 95.899 | no |
| thermophile | no | 99.761 | yes |
| glucose-util | no | 71.33 | no |
External links
@ref: 18175
culture collection no.: DSM 26168, CECT 7670, KCTC 23093
straininfo link
- @ref: 82394
- straininfo: 378970
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 18175 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26168) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26168 | |||
| 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 | |||
| 30104 | 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 | 26460 | 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) | |||
| 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 | |||
| 82394 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID378970.1 | StrainInfo: A central database for resolving microbial strain identifiers |