Strain identifier
BacDive ID: 132331
Type strain: 
Species: Microcella sp.
Strain Designation: Root332
Strain history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root332 <- Y. Bai
NCBI tax ID(s): 2021374 (species)
General
@ref: 24120
BacDive-ID: 132331
DSM-Number: 102559
keywords: genome sequence, Bacteria, mesophilic
description: Microcella sp. Root332 is a mesophilic bacterium that was isolated from roots of Arabidopsis thaliana ecotype Shakdara .
NCBI tax id
- NCBI tax id: 2021374
- Matching level: species
strain history
- @ref: 24120
- history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root332 <- Y. Bai
doi: 10.13145/bacdive132331.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Microbacteriaceae
- genus: Microcella
- species: Microcella sp.
- full scientific name: Microcella Tiago et al. 2005
synonyms
@ref synonym 20215 Marinisubtilis 20215 Yonghaparkia 20215 Chryseoglobus
@ref: 24120
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Microbacteriaceae
genus: Yonghaparkia
species: Yonghaparkia sp.
full scientific name: Yonghaparkia sp.
strain designation: Root332
type strain: no
Culture and growth conditions
culture medium
- @ref: 24120
- name: PP-MEDIUM (DSMZ Medium 513)
- growth: yes
- link: https://mediadive.dsmz.de/medium/513
- composition: Name: PP-MEDIUM (DSMZ Medium 513) Composition: Agar 15.0 g/l Polypeptone 10.0 g/l Yeast extract 2.0 g/l MgSO4 x 7 H2O 1.0 g/l Distilled water
culture temp
- @ref: 24120
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 24120
- 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 | Yonghaparkia sp. Root332 | GCA_001425665 | scaffold | ncbi | 1736516 |
| 66792 | Yonghaparkia sp. Root332 | 1736516.4 | wgs | patric | 1736516 |
| 66792 | Yonghaparkia sp. Root332 | 2643221635 | draft | img | 1736516 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 97.467 | no |
| gram-positive | yes | 93.363 | no |
| anaerobic | no | 98.863 | no |
| aerobic | yes | 94.668 | no |
| halophile | no | 93.892 | no |
| spore-forming | no | 93.315 | no |
| thermophile | no | 99.065 | yes |
| glucose-util | yes | 83.348 | no |
| motile | no | 88.563 | no |
| glucose-ferment | no | 94.006 | no |
External links
@ref: 24120
culture collection no.: DSM 102559
straininfo link
- @ref: 90678
- straininfo: 403618
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 | |
| 24120 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102559 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102559) | |
| 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 | |
| 90678 | 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-ID403618.1 |