Strain identifier
BacDive ID: 132146
Type strain: 
Species: Dyadobacter arcticus
Strain Designation: R-S7-29
Strain history: <- CCTCC AB 2011022
NCBI tax ID(s): 1078754 (species)
version 8.1 (current version)
General
@ref: 23936
BacDive-ID: 132146
DSM-Number: 102865
keywords: genome sequence, 16S sequence, Bacteria, psychrophilic
description: Dyadobacter arcticus R-S7-29 is a psychrophilic bacterium that was isolated from soil of coal mine hillside covered by tundra vegetation.
NCBI tax id
- NCBI tax id: 1078754
- Matching level: species
strain history
- @ref: 23936
- history: <- CCTCC AB 2011022
doi: 10.13145/bacdive132146.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Cytophagia
- order: Cytophagales
- family: Spirosomataceae
- genus: Dyadobacter
- species: Dyadobacter arcticus
- full scientific name: Dyadobacter arcticus Chen et al. 2013
@ref: 23936
domain: Bacteria
phylum: Bacteroidetes
class: Cytophagia
order: Cytophagales
family: Spirosomaceae
genus: Dyadobacter
species: Dyadobacter arcticus
full scientific name: Dyadobacter arcticus Chen et al. 2013
strain designation: R-S7-29
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 92.105 | |
| 69480 | 99.996 | negative |
Culture and growth conditions
culture medium
- @ref: 23936
- 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: 23936
- growth: positive
- type: growth
- temperature: 20
- range: psychrophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.998 |
Isolation, sampling and environmental information
isolation
- @ref: 23936
- sample type: soil of coal mine hillside covered by tundra vegetation
- geographic location: Svalbard Archipelago, Ny-Alesund
- country: Norway
- origin.country: NOR
- continent: Europe
- latitude: 78.9
- longitude: 11.95
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Other | #Mine |
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | |
| #Climate | #Cold | #Tundra |
taxonmaps
- @ref: 69479
- File name: preview.99_134883.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_496;96_3325;97_67302;98_90009;99_134883&stattab=map
- Last taxonomy: Dyadobacter arcticus subclade
- 16S sequence: JN562715
- Sequence Identity:
- Total samples: 239
- soil counts: 141
- aquatic counts: 38
- animal counts: 16
- plant counts: 44
Safety information
risk assessment
- @ref: 23936
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 23936
- description: Dyadobacter arcticus strain R-S7-29 16S ribosomal RNA gene, partial sequence
- accession: JN562715
- length: 1401
- database: ena
- NCBI tax ID: 1078754
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Dyadobacter arcticus DSM 102865 | GCA_011762185 | scaffold | ncbi | 1078754 |
| 66792 | Dyadobacter arcticus strain DSM 102865 | 1078754.3 | wgs | patric | 1078754 |
| 66792 | Dyadobacter arcticus DSM 102865 | 2828453682 | draft | img | 1078754 |
GC content
- @ref: 23936
- GC-content: 50
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 93.764 | no |
| flagellated | no | 98.392 | no |
| gram-positive | no | 97.361 | no |
| anaerobic | no | 99.53 | no |
| aerobic | yes | 90.468 | no |
| halophile | no | 94.585 | no |
| spore-forming | no | 94.172 | no |
| glucose-util | yes | 84.325 | no |
| thermophile | no | 99.485 | yes |
| glucose-ferment | no | 87.882 | no |
External links
@ref: 23936
culture collection no.: DSM 102865, CCTCC AB 2011022, NRRL B-59659
straininfo link
- @ref: 90502
- straininfo: 397864
literature
- topic: Phylogeny
- Pubmed-ID: 22904224
- title: Dyadobacter arcticus sp. nov., isolated from Arctic soil.
- authors: Chen L, Jiang F, Xiao M, Dai J, Kan W, Fang C, Peng F
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.044198-0
- year: 2012
- mesh: Arctic Regions, Bacterial Typing Techniques, Base Composition, Cytophagaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Svalbard, Vitamin K 2/analogs & derivatives/analysis
- topic2: Genetics
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | |
| 23936 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102865 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102865) | |
| 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 | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
| 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 | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
| 90502 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID397864.1 |