Strain identifier
BacDive ID: 11000
Type strain: 
Species: Rhodococcus opacus
Strain history: <- P.R. Wallnöfer ("Rhodococcus rubrus", Nocardia sp.)
NCBI tax ID(s): 37919 (species)
version 9.3 (current version)
General
@ref: 10906
BacDive-ID: 11000
DSM-Number: 43250
keywords: genome sequence, Bacteria, spore-forming, mesophilic
description: Rhodococcus opacus DSM 43250 is a spore-forming, mesophilic bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 37919
- Matching level: species
strain history
- @ref: 10906
- history: <- P.R. Wallnöfer ("Rhodococcus rubrus", Nocardia sp.)
doi: 10.13145/bacdive11000.20250331.9.3
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 opacus
- full scientific name: Rhodococcus opacus Klatte et al. 1995
synonyms
@ref synonym 20215 Rhodococcus percolatus 20215 Rhodococcus imtechensis
@ref: 10906
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Nocardiaceae
genus: Rhodococcus
species: Rhodococcus opacus
full scientific name: Rhodococcus opacus Klatte et al. 1995
type strain: no
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 125438 | no | 90 | |
| 125439 | 98.6 | positive |
multimedia
- @ref: 10906
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_43250.jpg
- caption: Medium 83 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 10906 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
| 10906 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water |
culture temp
- @ref: 10906
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: obligate aerobe
- confidence: 96.7
Isolation, sampling and environmental information
isolation
- @ref: 10906
- sample type: soil
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 10906
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Rhodococcus opacus strain ATCC 51882 | 37919.36 | wgs | patric | 37919 |
| 66792 | Rhodococcus opacus ATCC 51882 | 2681812806 | draft | img | 37919 |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 85.656 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 95.476 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 59.939 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 88.694 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 96.5 | no |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 90 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 59.6 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 86.5 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 98.6 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 96.7 |
External links
@ref: 10906
culture collection no.: DSM 43250, ATCC 51882
straininfo link
- @ref: 80254
- straininfo: 43226
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Metabolism | 22112557 | Production of alpha-ketoisocaproate via free-whole-cell biotransformation by Rhodococcus opacus DSM 43250 with L-leucine as the substrate. | Zhu Y, Li J, Liu L, Du G, Chen J | Enzyme Microb Technol | 10.1016/j.enzmictec.2011.06.008 | 2011 | Biotechnology/*methods, Biotransformation, Culture Media, Hydrogen-Ion Concentration, Keto Acids/*metabolism, Leucine/*metabolism, Models, Statistical, Rhodococcus/cytology/growth & development/*metabolism, Substrate Specificity, Temperature | Biotechnology |
| Metabolism | 30641383 | Carbon and hydrogen isotopic fractionation during abiotic hydrolysis and aerobic biodegradation of phthalate esters. | Zhang D, Wu L, Yao J, Vogt C, Richnow HH | Sci Total Environ | 10.1016/j.scitotenv.2019.01.003 | 2019 | Aerobiosis, Biodegradation, Environmental, Carbon Isotopes/*chemistry, Deuterium/*chemistry, Environmental Pollutants/chemistry/metabolism, Esters/metabolism, Hydrogen/*chemistry, Hydrolysis, Phthalic Acids/*metabolism, Rhodococcus/*metabolism |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 10906 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43250) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-43250 | |
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 80254 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID43226.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | 10.1101/2024.08.12.607695 | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | https://github.com/GenomeNet/deepG | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 |