Strain identifier
BacDive ID: 130581
Type strain: 
Species: Halopseudomonas yangmingensis
Strain history: <- B.-T. Wong, Department of Chemical Engineering, Natl. Taiwan Univ., Taipei; CRS1
NCBI tax ID(s): 1720063 (species)
version 8.1 (current version)
General
@ref: 22031
BacDive-ID: 130581
DSM-Number: 24213
keywords: genome sequence, Bacteria, mesophilic
description: Halopseudomonas yangmingensis DSM 24213 is a mesophilic bacterium that was isolated from water and soil from hot sulfur spring.
NCBI tax id
- NCBI tax id: 1720063
- Matching level: species
strain history
- @ref: 22031
- history: <- B.-T. Wong, Department of Chemical Engineering, Natl. Taiwan Univ., Taipei; CRS1
doi: 10.13145/bacdive130581.20230509.8.1
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 yangmingensis
- full scientific name: Halopseudomonas yangmingensis (Wong and Lee 2014) Girard et al. 2023
synonyms
- @ref: 20215
- synonym: Pseudomonas yangmingensis
@ref: 22031
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas yangmingensis
full scientific name: Pseudomonas yangmingensis
type strain: no
Culture and growth conditions
culture medium
- @ref: 22031
- name: NSC3-MEDIUM WITH ACETATE (DSMZ Medium 1246)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1246
- composition: Name: NSC3-MEDIUM WITH ACETATE (DSMZ Medium 1246) Composition: Agar 15.0 g/l NaCl 10.0 g/l NaHCO3 1.5 g/l Na2S x 9 H2O 1.0 g/l Na-acetate 0.44 g/l NH4Cl 0.25 g/l K2HPO4 0.25 g/l EDTA 0.0005 g/l FeSO4 x 7 H2O 0.0002 g/l H3BO3 3e-05 g/l CoCl2 x 6 H2O 2e-05 g/l ZnSO4 x 7 H2O 1e-05 g/l MnCl2 x 4 H2O 3e-06 g/l Na2MoO4 x 2 H2O 3e-06 g/l NiCl2 x 6 H2O 2e-06 g/l CuCl2 x 2 H2O 1e-06 g/l Distilled water
culture temp
- @ref: 22031
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 22031
- sample type: water and soil from hot sulfur spring
- geographic location: Yang-Ming Mountain, New Taipeh City
- country: Taiwan
- origin.country: TWN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Thermal spring |
| #Environmental | #Terrestrial | #Soil |
| #Condition | #Sulfuric | |
| #Condition | #Thermophilic (>45°C) |
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Halopseudomonas yangmingensis DSM 24213 | GCA_900114825 | scaffold | ncbi | 1720063 |
| 66792 | Pseudomonas yangmingensis strain DSM 24213 | 1720063.3 | wgs | patric | 1720063 |
| 66792 | Pseudomonas yangmingensis DSM 24213 | 2663762769 | draft | img | 1720063 |
GC content
- @ref: 22031
- GC-content: 63.7
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 91.285 | no |
| flagellated | yes | 78.793 | no |
| gram-positive | no | 98.681 | no |
| anaerobic | no | 95.05 | no |
| aerobic | yes | 80.374 | no |
| halophile | yes | 57.596 | no |
| spore-forming | no | 95.711 | no |
| thermophile | no | 99.127 | yes |
| glucose-util | no | 83.453 | no |
| glucose-ferment | no | 88.862 | no |
External links
@ref: 22031
culture collection no.: DSM 24213, CRS 1
literature
- topic: Phylogeny
- Pubmed-ID: 23849745
- title: Pseudomonas yangmingensis sp. nov., an alkaliphilic denitrifying species isolated from a hot spring.
- authors: Wong BT, Lee DJ
- journal: J Biosci Bioeng
- DOI: 10.1016/j.jbiosc.2013.06.006
- year: 2013
- mesh: Alkalies/*metabolism, Autotrophic Processes, Base Composition, DNA, Bacterial/genetics, *Denitrification, Fatty Acids/chemistry, Genetic Association Studies, Heterotrophic Processes, Hot Springs/*microbiology, Nitrates/metabolism, *Phylogeny, Pseudomonas/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics
- topic2: Metabolism
Reference
| @id | authors | title | doi/url | catalogue | journal | pubmed |
|---|---|---|---|---|---|---|
| 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 | |||
| 22031 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24213 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24213) | |||
| 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 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 |