Strain identifier
version 9.3 (current version)
General
@ref: 20215
BacDive-ID: 167888
keywords: genome sequence, 16S sequence, Bacteria, Gram-negative
description: Pseudomonas flexibilis ATCC 29606 is a Gram-negative bacterium of the family Pseudomonadaceae.
NCBI tax id
- NCBI tax id: 706570
- Matching level: species
doi: 10.13145/bacdive167888.20250331.9.3
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 flexibilis
- full scientific name: Pseudomonas flexibilis (Hespell 1977) Shin et al. 2016
synonyms
@ref synonym 20215 Serpens tuomuerensis 20215 Serpens flexibilis 20215 Pseudomonas tuomuerensis
@ref: 20215
domain: Bacteria
phylum: Pseudomonadota
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Pseudomonas
species: Pseudomonas flexibilis
full scientific name: Pseudomonas flexibilis (Hespell 1977) Shin et al. 2016
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence | motility |
|---|---|---|---|
| 125438 | negative | 98.5 | |
| 125439 | 94.7 | yes | |
| 125439 | negative | 99.9 |
Physiology and metabolism
spore formation
- @ref: 125439
- spore formation: no
- confidence: 99.5
Isolation, sampling and environmental information
taxonmaps
- @ref: 69479
- File name: preview.99_5121.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_2491;97_3042;98_3820;99_5121&stattab=map
- Last taxonomy: Pseudomonas flexibilis subclade
- 16S sequence: GU269546
- Sequence Identity:
- Total samples: 1259
- soil counts: 688
- aquatic counts: 223
- animal counts: 229
- plant counts: 119
Safety information
risk assessment
- @ref: 20215
- biosafety level: 1
- biosafety level comment: Risk group
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20215 | Serpens flexibilis strain ATCC 29606 16S ribosomal RNA gene, partial sequence | GU269546 | 1460 | nuccore | 706570 |
| 124043 | Serpens flexibilis strain ATCC 29606 16S ribosomal RNA gene, partial sequence. | KP973996 | 1530 | nuccore | 706570 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Pseudomonas flexibilis ATCC 29606 | GCA_000802425 | contig | ncbi | 706570 |
| 66792 | Pseudomonas flexibilis ATCC 29606 | GCA_900155995 | scaffold | ncbi | 706570 |
| 66792 | Serpens flexibilis ATCC 29606 | 706570.3 | wgs | patric | 706570 |
| 66792 | Pseudomonas flexibilis strain ATCC 29606 | 706570.5 | wgs | patric | 706570 |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 98.5 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 96.362 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 83.121 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 89.165 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 97.5 | no |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 87.827 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 99.5 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 94.7 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 99.9 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | aerobe | 70.9 |
External links
@ref: 20215
culture collection no.: ATCC 29606, LMG 29034
straininfo link
- @ref: 115047
- straininfo: 39611
literature
- topic: Phylogeny
- Pubmed-ID: 26516088
- title: Reclassification of Serpens flexibilis Hespell 1977 as Pseudomonas flexibilis comb. nov., with Pseudomonas tuomuerensis Xin et al. 2009 as a later heterotypic synonym.
- authors: Shin SK, Hwang CY, Cho YJ, Yi H
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2015.09.007
- year: 2015
- mesh: Animals, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Enzymes/analysis, Fatty Acids/analysis, Genome, Bacterial, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pseudomonas/chemistry/*classification/*genetics/physiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Genetics
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 |
| 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/ |
| 115047 | 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-ID39611.1 |
| 124043 | Isabel Schober, Julia Koblitz | Data extracted from sequence databases, automatically matched based on designation and taxonomy | |
| 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 |