Strain identifier
BacDive ID: 131923
Type strain: 
Species: Rhodococcus sp.
Strain Designation: Leaf225
Strain history: <- J. A. Vorholt, Institute of Microbiology, ETH Zurich, Switzerland; Leaf225 <- D. B. Müller, E. Potthoff and M. Remus-Emsermann
NCBI tax ID(s): 194249 (species)
version 9.3 (current version)
General
@ref: 23715
BacDive-ID: 131923
DSM-Number: 102719
keywords: genome sequence, Bacteria, mesophilic, Gram-positive
description: Rhodococcus sp. Leaf225 is a mesophilic, Gram-positive bacterium that was isolated from leaf of Arabidopsis thaliana, wild-type genotype.
NCBI tax id
- NCBI tax id: 194249
- Matching level: species
strain history
- @ref: 23715
- history: <- J. A. Vorholt, Institute of Microbiology, ETH Zurich, Switzerland; Leaf225 <- D. B. Müller, E. Potthoff and M. Remus-Emsermann
doi: 10.13145/bacdive131923.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Mycobacteriales
- family: Nocardiaceae
- genus: Rhodococcus
- species: Rhodococcus sp.
- full scientific name: Rhodococcus Zopf 1891 (Approved Lists 1980)
synonyms
@ref synonym 20215 Rhodococcoides 20215 Prescottella 20215 Prescottia
@ref: 23715
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Nocardiaceae
genus: Rhodococcus
species: Rhodococcus sp.
full scientific name: Rhodococcus sp.
strain designation: Leaf225
type strain: no
Morphology
cell morphology
| @ref | gram stain | confidence |
|---|---|---|
| 125438 | positive | 92.261 |
| 125439 | positive | 94.4 |
multimedia
- @ref: 23715
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_102719.jpg
- caption: Medium 65 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 23715
- 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: 23715
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: aerobe
- confidence: 96.4
Isolation, sampling and environmental information
isolation
- @ref: 23715
- sample type: leaf of Arabidopsis thaliana, wild-type genotype
- host species: Arabidopsis thaliana
- geographic location: Brugg (47.4816806N 8.217547222E)
- country: Switzerland
- origin.country: CHE
- continent: Europe
- latitude: 47.4817
- longitude: 8.2176
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Leaf (Phyllosphere) |
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Rhodococcus sp. Leaf225 | GCA_001426145 | scaffold | ncbi | 1736300 |
| 66792 | Rhodococcus sp. Leaf225 | 1736300.3 | wgs | patric | 1736300 |
| 66792 | Rhodococcus sp. Leaf225 | 2643221953 | draft | img | 1736300 |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 92.261 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 98.116 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 89.899 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 60.172 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 95.491 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 87.371 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 77.3 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 61.2 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 94.4 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | aerobe | 96.4 |
External links
@ref: 23715
culture collection no.: DSM 102719
straininfo link
- @ref: 90310
- straininfo: 403266
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 | |
| 23715 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102719 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102719) | |
| 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 | |
| 90310 | 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-ID403266.1 | |
| 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 |