Strain identifier
BacDive ID: 11138
Type strain: 
Species: Nocardioides halotolerans
Strain Designation: MSL-23
Strain history: <- CJ Kim, KRIBB
NCBI tax ID(s): 1122609 (strain), 433660 (species)
version 8.1 (current version)
General
@ref: 7991
BacDive-ID: 11138
DSM-Number: 19273
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive
description: Nocardioides halotolerans MSL-23 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from soil, farming field.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 433660 | species |
| 1122609 | strain |
strain history
| @ref | history |
|---|---|
| 7991 | <- Chang-Jin Kim; MSL-23 |
| 67771 | <- CJ Kim, KRIBB |
doi: 10.13145/bacdive11138.20230509.8.1
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 halotolerans
- full scientific name: Nocardioides halotolerans Dastager et al. 2009
@ref: 7991
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Nocardioidaceae
genus: Nocardioides
species: Nocardioides halotolerans
full scientific name: Nocardioides halotolerans Dastager et al. 2009 emend. Nouioui et al. 2018
strain designation: MSL-23
type strain: yes
Morphology
cell morphology
| @ref | gram stain | motility | confidence |
|---|---|---|---|
| 67771 | positive | ||
| 69480 | no | 96.483 | |
| 69480 | positive | 100 |
Culture and growth conditions
culture medium
- @ref: 7991
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 7991 | positive | growth | 28 | mesophilic |
| 67771 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.897
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 7991 | soil, farming field | Bikeum Island | Republic of Korea | KOR | Asia |
| 67771 | From farming field | Bikeum island | Republic of Korea | KOR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Agriculture | #Field |
| #Environmental | #Terrestrial | #Soil |
taxonmaps
- @ref: 69479
- File name: preview.99_6583.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_142;96_3121;97_3822;98_4856;99_6583&stattab=map
- Last taxonomy: Nocardioides
- 16S sequence: EF466122
- Sequence Identity:
- Total samples: 2310
- soil counts: 1598
- aquatic counts: 209
- animal counts: 473
- plant counts: 30
Safety information
risk assessment
- @ref: 7991
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 7991
- description: Nocardioides halotolerans strain MSL-23 16S ribosomal RNA gene, partial sequence
- accession: EF466122
- length: 1407
- database: ena
- NCBI tax ID: 1122609
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Nocardioides halotolerans DSM 19273 | GCA_000422805 | scaffold | ncbi | 1122609 |
| 66792 | Nocardioides halotolerans DSM 19273 | 1122609.3 | wgs | patric | 1122609 |
| 66792 | Nocardioides halotolerans DSM 19273 | 2523533541 | draft | img | 1122609 |
GC content
- @ref: 7991
- GC-content: 69.7
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 64 | no |
| motile | no | 97.424 | no |
| flagellated | no | 98.689 | no |
| gram-positive | yes | 92.259 | yes |
| anaerobic | no | 99.146 | yes |
| aerobic | yes | 90.962 | yes |
| halophile | no | 95.885 | no |
| spore-forming | no | 78.763 | no |
| thermophile | no | 97.536 | yes |
| glucose-util | yes | 87.304 | no |
| glucose-ferment | no | 89.43 | no |
External links
@ref: 7991
culture collection no.: DSM 19273, KCTC 19274, MSL 23
straininfo link
- @ref: 80387
- straininfo: 400980
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 18191931 | Nocardioides halotolerans sp. nov., isolated from soil on Bigeum Island, Korea. | Dastager SG, Lee JC, Ju YJ, Park DJ, Kim CJ | Syst Appl Microbiol | 10.1016/j.syapm.2007.10.003 | 2008 | Actinomycetales/*classification/genetics/*isolation & purification/metabolism, Aerobiosis, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Korea, Microscopy, Electron, Scanning, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, *Soil Microbiology, Vitamin K 2/analysis | Metabolism |
| Phylogeny | 32945761 | Nocardioides flavescens sp. nov., isolated from soil of Gaoligong Mountain, PR China. | Zhang K, Jiang LQ, An DF, Lang L, Li GD, Jiang MG, Li QY, Jiang CL, Jiang Y | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004473 | 2020 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nocardioides/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 7991 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19273) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19273 | |
| 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) | |
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||
| 69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 80387 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID400980.1 | StrainInfo: A central database for resolving microbial strain identifiers |