Strain identifier
BacDive ID: 164546
Type strain: 
Species: Pseudomonas yangonensis
Strain history: M. Tohya and T. Kirikae; Juntendo Univ. Sch. of Med., Japan <-- H. H. Tin; Natl. Health Lab., Myanmar; MY50.
NCBI tax ID(s): 2579922 (species)
version 9.3 (current version)
General
@ref: 67770
BacDive-ID: 164546
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative
description: Pseudomonas yangonensis JCM 33396 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from Wound of a patient hospitalized in Yangon.
NCBI tax id
- NCBI tax id: 2579922
- Matching level: species
strain history
- @ref: 67770
- history: M. Tohya and T. Kirikae; Juntendo Univ. Sch. of Med., Japan <-- H. H. Tin; Natl. Health Lab., Myanmar; MY50.
doi: 10.13145/bacdive164546.20250331.9.3
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 yangonensis
- full scientific name: Pseudomonas yangonensis Tohya et al. 2020
synonyms
- @ref: 20215
- synonym: Ectopseudomonas yangonensis
@ref: 67770
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas yangonensis
full scientific name: Pseudomonas yangonensis Tohya et al. 2020
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 125438 | yes | 91.29 | |
| 125438 | 99.5 | negative | |
| 125439 | 99.9 | negative | |
| 125439 | yes | 93.7 |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 30
Physiology and metabolism
oxygen tolerance
- @ref: 125438
- oxygen tolerance: aerobe
- confidence: 93.05
spore formation
- @ref: 125439
- spore formation: no
- confidence: 99.8
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Wound of a patient hospitalized in Yangon
- country: Myanmar
- origin.country: MMR
- continent: Asia
taxonmaps
- @ref: 69479
- File name: preview.99_31855.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_64;98_1532;99_31855&stattab=map
- Last taxonomy: Pseudomonas
- 16S sequence: MK907288
- Sequence Identity:
- Total samples: 6
- soil counts: 1
- aquatic counts: 1
- animal counts: 4
Sequence information
16S sequences
- @ref: 67770
- description: Pseudomonas yangonensis strain MY50 16S ribosomal RNA gene, partial sequence
- accession: MK907288
- length: 1469
- database: nuccore
- NCBI tax ID: 306
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Pseudomonas sp. MY50 | 2579922.3 | wgs | patric | 2579922 |
| 67770 | Pseudomonas yangonensis MY50 | GCA_009932725 | contig | ncbi | 2579922 |
GC content
- @ref: 67770
- GC-content: 62.82
- method: genome sequence analysis
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 99.5 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 95.583 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 89.16 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 93.05 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 99.291 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 91.29 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 99.8 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 93.7 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 99.9 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 87.9 |
External links
@ref: 67770
culture collection no.: JCM 33396, LMG 31602
literature
- topic: Phylogeny
- Pubmed-ID: 32501786
- title: Pseudomonas yangonensis sp. nov., isolated from wound samples of patients in a hospital in Myanmar.
- authors: Tohya M, Watanabe S, Teramoto K, Tada T, Kuwahara-Arai K, Mya S, Zin KN, Kirikae T, Tin HH
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.004181
- year: 2020
- mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Hospitals, Humans, Myanmar, Nucleic Acid Hybridization, *Phylogeny, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Wounds and Injuries/*microbiology
- topic2: Pathogenicity
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 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 |
| 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 |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |
| 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/ |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |