Strain identifier
BacDive ID: 161801
Type strain: 
Species: Nocardioides sp.
Strain history: K. Satsuma DN36.
NCBI tax ID(s): 652434 (species)
version 8.1 (current version)
General
@ref: 67770
BacDive-ID: 161801
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-positive
description: Nocardioides sp. JCM 16518 is a mesophilic, Gram-positive bacterium that was isolated from Paddy field soil.
NCBI tax id
- NCBI tax id: 652434
- Matching level: species
strain history
- @ref: 67770
- history: K. Satsuma DN36.
doi: 10.13145/bacdive161801.20230509.8.1
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: 67770
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Propionibacteriales
family: Nocardioidaceae
genus: Nocardioides
species: Nocardioides sp.
full scientific name: Nocardioides sp.
type strain: no
Morphology
cell morphology
| @ref | gram stain | confidence | motility |
|---|---|---|---|
| 69480 | positive | 99.72 | |
| 69480 | 90.442 | no |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.999
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Paddy field soil
- geographic location: Tsukubamirai, Ibaraki Pref.
- country: Japan
- origin.country: JPN
- continent: Asia
Sequence information
16S sequences
- @ref: 67770
- description: Nocardioides sp. DN36 gene for 16S rRNA, partial sequence
- accession: AB508351
- length: 1454
- database: ena
- NCBI tax ID: 652434
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Nocardioides sp. DN36 strain JCM 16518 | 652434.3 | wgs | patric | 652434 |
| 66792 | Nocardioides sp. JCM 16518 | 2681813018 | draft | img | 652434 |
| 67770 | Nocardioides sp. DN36 JCM 16518 | GCA_001312705 | contig | ncbi | 652434 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 78 | no |
| gram-positive | yes | 90.02 | no |
| anaerobic | no | 97.069 | no |
| halophile | no | 94.944 | no |
| spore-forming | no | 91.874 | no |
| glucose-util | yes | 86.037 | no |
| thermophile | no | 98.987 | yes |
| flagellated | no | 98.949 | no |
| motile | no | 95.155 | no |
| aerobic | yes | 94.168 | no |
| glucose-ferment | no | 86.482 | no |
External links
@ref: 67770
culture collection no.: JCM 16518
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 |