Strain identifier
BacDive ID: 166060
Type strain: 
Species: Rhodococcus sp.
Strain history: T. Kudo HA99.
NCBI tax ID(s): 402289 (species)
version 8.1 (current version)
General
@ref: 67770
BacDive-ID: 166060
keywords: genome sequence, 16S sequence, mesophilic, Gram-positive
description: Rhodococcus sp. JCM 9789 is a mesophilic, Gram-positive prokaryote that was isolated from Garden soil,by enrichment with biphenyl as the sole source of carbon and energy.
NCBI tax id
- NCBI tax id: 402289
- Matching level: species
strain history
- @ref: 67770
- history: T. Kudo HA99.
doi: 10.13145/bacdive166060.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- genus: Rhodococcus
- species: Rhodococcus sp.
- full scientific name: Rhodococcus Zopf 1891 (Approved Lists 1980)
synonyms
@ref synonym 20215 Prescottella 20215 Rhodococcoides 20215 Spelaeibacter 20215 Prescottia
@ref: 67770
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Mycobacteriales
family: Nocardiaceae
genus: Rhodococcus
species: Rhodococcus sp.
full scientific name: Rhodococcus sp.
type strain: no
Morphology
cell morphology
| @ref | gram stain | confidence | motility |
|---|---|---|---|
| 69480 | positive | 100 | |
| 69480 | 91.87 | no |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.866
observation
- @ref: 67770
- observation: quinones: MK-8(H2)
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Garden soil,by enrichment with biphenyl as the sole source of carbon and energy
- geographic location: Saitama Pref.
- country: Japan
- origin.country: JPN
- continent: Asia
Sequence information
16S sequences
- @ref: 67770
- description: Rhodococcus sp. DNA for 16S rRNA, partial sequence
- accession: D87092
- length: 890
- database: ena
- NCBI tax ID: 1831
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Rhodococcus sp. HA99 JCM 9789 | GCA_001312925 | contig | ncbi | 402289 |
| 66792 | Rhodococcus sp. HA99 strain JCM 9789 | 402289.3 | wgs | patric | 402289 |
| 66792 | Rhodococcus sp. JCM 9789 | 2734481922 | draft | img | 402289 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 61 | no |
| gram-positive | yes | 87.083 | no |
| anaerobic | no | 99.193 | no |
| halophile | no | 85.96 | no |
| spore-forming | no | 73.034 | no |
| glucose-util | yes | 87.637 | no |
| aerobic | yes | 87.596 | no |
| flagellated | no | 98.889 | no |
| thermophile | no | 99.796 | no |
| motile | no | 94.321 | no |
| glucose-ferment | no | 90.88 | no |
External links
@ref: 67770
culture collection no.: JCM 9789
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 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 |
| 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 |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |
| 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 |