Strain identifier
BacDive ID: 131582
Type strain: 
Species: Acidovorax sp.
Strain Designation: Root219
Strain history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root219 <- Y. Bai
NCBI tax ID(s): 1872122 (species)
version 9.3 (current version)
General
@ref: 23378
BacDive-ID: 131582
DSM-Number: 102362
keywords: genome sequence, Bacteria, aerobe, mesophilic, Gram-negative
description: Acidovorax sp. Root219 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from roots of Arabidopsis thaliana ecotype Shakdara .
NCBI tax id
- NCBI tax id: 1872122
- Matching level: species
strain history
- @ref: 23378
- history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root219 <- Y. Bai
doi: 10.13145/bacdive131582.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Acidovorax
- species: Acidovorax sp.
- full scientific name: Acidovorax Willems et al. 1990
synonyms
@ref synonym 20215 Paenacidovorax 20215 Paracidovorax
@ref: 23378
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Acidovorax
species: Acidovorax sp.
full scientific name: Acidovorax sp.
strain designation: Root219
type strain: no
Morphology
cell morphology
| @ref | gram stain | confidence |
|---|---|---|
| 125438 | negative | 98.5 |
| 125439 | negative | 94.6 |
Culture and growth conditions
culture medium
- @ref: 23378
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 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
culture temp
- @ref: 23378
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
oxygen tolerance
- @ref: 125438
- oxygen tolerance: aerobe
- confidence: 90.021
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 125438 | no | 90.212 |
| 125439 | no | 95.1 |
Isolation, sampling and environmental information
isolation
- @ref: 23378
- sample type: roots of Arabidopsis thaliana ecotype Shakdara (Sha)
- host species: Arabidopsis thaliana
- geographic location: Cologne (50.958N 6.856E)
- country: Germany
- origin.country: DEU
- continent: Europe
- latitude: 50.958
- longitude: 6.856
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Root (Rhizome) |
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Acidovorax sp. Root219 | GCA_001428665 | scaffold | ncbi | 1736493 |
| 66792 | Acidovorax sp. Root219 | 1736493.3 | wgs | patric | 1736493 |
| 66792 | Acidovorax sp. Root219 | 2643221611 | draft | img | 1736493 |
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 | 96.645 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 90.021 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 90.212 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 98.497 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 84.649 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 95.1 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 81.5 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 94.6 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 87.3 |
External links
@ref: 23378
culture collection no.: DSM 102362
straininfo link
- @ref: 89988
- straininfo: 404346
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | |
| 23378 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102362 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102362) | |
| 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 | |
| 89988 | 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-ID404346.1 | |
| 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 |