Strain identifier
BacDive ID: 131837
Type strain: 
Species: Nocardioides sp.
Strain Designation: Root190
Strain history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root190 <- Y. Bai
NCBI tax ID(s): 35761 (species)
General
@ref: 23630
BacDive-ID: 131837
DSM-Number: 102475
keywords: genome sequence, Bacteria, mesophilic
description: Nocardioides sp. Root190 is a mesophilic bacterium that was isolated from roots of Arabidopsis thaliana ecotype Shakdara .
NCBI tax id
- NCBI tax id: 35761
- Matching level: species
strain history
- @ref: 23630
- history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root190 <- Y. Bai
doi: 10.13145/bacdive131837.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Propionibacteriales
- family: Nocardioidaceae
- genus: Nocardioides
- species: Nocardioides sp.
- full scientific name: Nocardioides Prauser 1976 (Approved Lists 1980)
synonyms
@ref synonym 20215 Marmoricola 20215 Pimelobacter
@ref: 23630
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Nocardioidaceae
genus: Nocardioides
species: Nocardioides sp.
full scientific name: Nocardioides sp.
strain designation: Root190
type strain: no
Morphology
multimedia
- @ref: 23630
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_102475.jpg
- caption: Medium 830 28°C
- intellectual property rights: Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH
Culture and growth conditions
culture medium
- @ref: 23630
- 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: 23630
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 23630
- 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 | Nocardioides sp. Root190 | 1736488.3 | wgs | patric | 1736488 |
| 66792 | Nocardioides sp. Root190 | 2643221604 | draft | img | 1736488 |
| 66792 | Nocardioides sp. Root190 | GCA_001428565 | scaffold | ncbi | 1736488 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 91.66 | no |
| gram-positive | yes | 88.373 | no |
| anaerobic | no | 98.558 | no |
| aerobic | yes | 89.798 | no |
| halophile | no | 95.722 | no |
| spore-forming | no | 84.165 | no |
| thermophile | no | 98.653 | yes |
| glucose-util | yes | 87.668 | no |
| motile | no | 80.777 | no |
| glucose-ferment | no | 88.173 | no |
External links
@ref: 23630
culture collection no.: DSM 102475
straininfo link
- @ref: 90228
- straininfo: 398707
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 | |
| 23630 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102475 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102475) | |
| 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 | |
| 90228 | 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-ID398707.1 |