Strain identifier
BacDive ID: 132115
Type strain: 
Species: Rhodanobacter sp.
Strain Designation: Root561
Strain history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root561 <- Y. Bai
NCBI tax ID(s): 1883446 (species)
version 9.1 (current version)
General
@ref: 23905
BacDive-ID: 132115
DSM-Number: 102533
keywords: genome sequence, Bacteria, Gram-negative
description: Rhodanobacter sp. Root561 is a Gram-negative bacterium that was isolated from roots of Arabidopsis thaliana ecotype Columbia-0 .
NCBI tax id
- NCBI tax id: 1883446
- Matching level: species
strain history
- @ref: 23905
- history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root561 <- Y. Bai
doi: 10.13145/bacdive132115.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Lysobacterales
- family: Rhodanobacteraceae
- genus: Rhodanobacter
- species: Rhodanobacter sp.
- full scientific name: Rhodanobacter Nalin et al. 1999
@ref: 23905
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Xanthomonadales
family: Rhodanobacteraceae
genus: Rhodanobacter
species: Rhodanobacter sp.
full scientific name: Rhodanobacter sp.
strain designation: Root561
type strain: no
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 98
Culture and growth conditions
culture medium
- @ref: 23905
- name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
- growth: yes
- link: https://mediadive.dsmz.de/medium/535
- composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
culture temp
- @ref: 23905
- growth: positive
- type: growth
- temperature: 28
Isolation, sampling and environmental information
isolation
- @ref: 23905
- sample type: roots of Arabidopsis thaliana ecotype Columbia-0 (Col-0)
- 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 | Rhodanobacter sp. Root561 | GCA_001427365 | scaffold | ncbi | 1736560 |
| 66792 | Rhodanobacter sp. Root561 | 1736560.3 | wgs | patric | 1736560 |
| 66792 | Rhodanobacter sp. Root561 | 2643221562 | draft | img | 1736560 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 98 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.735 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 86.805 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 84.775 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 95.717 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 59.38 | no |
External links
@ref: 23905
culture collection no.: DSM 102533
straininfo link
- @ref: 90471
- straininfo: 404497
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 | |
| 23905 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102533 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102533) | |
| 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 | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 90471 | 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-ID404497.1 |