Strain identifier
BacDive ID: 164377
Type strain: 
Species: Nocardioides eburneiflavus
Strain history: S. B. Kim; Chungnam Natl. Univ., South Korea; MMS17-SY213.
NCBI tax ID(s): 2518372 (species)
version 9.1 (current version)
General
@ref: 67770
BacDive-ID: 164377
keywords: genome sequence, 16S sequence, Bacteria
description: Nocardioides eburneiflavus JCM 32833 is a bacterium that was isolated from Sandy soil sampled around a beach on Seonyu Island.
NCBI tax id
- NCBI tax id: 2518372
- Matching level: species
strain history
- @ref: 67770
- history: S. B. Kim; Chungnam Natl. Univ., South Korea; MMS17-SY213.
doi: 10.13145/bacdive164377.20240916.9.1
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 eburneiflavus
- full scientific name: Nocardioides eburneiflavus Roh et al. 2020
@ref: 67770
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Propionibacteriales
family: Nocardioidaceae
genus: Nocardioides
species: Nocardioides eburneiflavus
full scientific name: Nocardioides eburneiflavus Roh et al. 2020
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 91.848
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
oxygen tolerance
- @ref: 69480
- oxygen tolerance: aerobe
- confidence: 92.097
observation
- @ref: 67770
- observation: quinones: MK-8(H4)
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Sandy soil sampled around a beach on Seonyu Island
- country: Republic of Korea
- origin.country: KOR
- continent: Asia
Sequence information
16S sequences
- @ref: 67770
- description: Nocardioides eburneiflavus strain MMS17-SY213 16S ribosomal RNA gene, partial sequence
- accession: MH166742
- length: 1461
- database: nuccore
- NCBI tax ID: 2518372
Genome sequences
- @ref: 67770
- description: Nocardioides eburneiflavus MMS17-SY213
- accession: GCA_004785795
- assembly level: contig
- database: ncbi
- NCBI tax ID: 2518372
GC content
- @ref: 67770
- GC-content: 71.5
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 91.848 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 96.393 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 92.097 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 62.86 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 97.486 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 86.667 | no |
External links
@ref: 67770
culture collection no.: JCM 32833, KCTC 49177
literature
- topic: Phylogeny
- Pubmed-ID: 32141810
- title: Nocardioides euryhalodurans sp. nov., Nocardioides seonyuensis sp. nov. and Nocardioides eburneiflavus sp. nov., isolated from soil.
- authors: Roh SG, Lee C, Kim MK, Kang HJ, Kim YS, Kim MJ, Malik A, Kim SB
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.004095
- year: 2020
- mesh: Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sand/microbiology, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Transcriptome
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 |
| 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 |