Strain identifier
BacDive ID: 24825
Type strain: 
Species: Arsukibacterium ikkense
Strain Designation: GCM72
Strain history: <- P. Stougaard, Royal Vet. and Agricultural Univ., Frederiksberg, Denmark; GCM 72
NCBI tax ID(s): 336831 (species)
version 9 (current version)
General
@ref: 18785
BacDive-ID: 24825
DSM-Number: 17999
keywords: genome sequence, 16S sequence, Bacteria
description: Arsukibacterium ikkense GCM72 is a bacterium that was isolated from alkaline, low-saline ikaite tufa columns.
NCBI tax id
- NCBI tax id: 336831
- Matching level: species
strain history
- @ref: 18785
- history: <- P. Stougaard, Royal Vet. and Agricultural Univ., Frederiksberg, Denmark; GCM 72
doi: 10.13145/bacdive24825.20240510.9
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Gammaproteobacteria, not assigned to order
- family: Gammaproteobacteria, not assigned to family
- genus: Arsukibacterium
- species: Arsukibacterium ikkense
- full scientific name: Arsukibacterium ikkense Schmidt et al. 2016
@ref: 18785
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Gammaproteobacteria, not assigned to order
family: Gammaproteobacteria, not assigned to family
genus: Arsukibacterium
species: Arsukibacterium ikkense
full scientific name: Arsukibacterium ikkense Schmidt et al. 2016
strain designation: GCM72
type strain: yes
Culture and growth conditions
culture medium
- @ref: 18785
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830; with strain-specific modifications) Composition: Na2CO3 52.994 g/l Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 0.5 g/l Na-pyruvate 0.3 g/l K2HPO4 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
Isolation, sampling and environmental information
isolation
- @ref: 18785
- sample type: alkaline, low-saline ikaite tufa columns
- geographic location: Ikka Fjord (61°11' N, 48°01' W)
- country: Greenland
- origin.country: GRL
- continent: North America
- latitude: 61.1833
- longitude: -48.0167
isolation source categories
- Cat1: #Condition
- Cat2: #Alkaline
taxonmaps
- @ref: 69479
- File name: preview.99_4074.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_43;96_86;97_2437;98_3014;99_4074&stattab=map
- Last taxonomy: Chromatiaceae
- 16S sequence: DQ112664
- Sequence Identity:
- Total samples: 897
- soil counts: 25
- aquatic counts: 431
- animal counts: 427
- plant counts: 14
Safety information
risk assessment
- @ref: 18785
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 18785
- description: Arsukibacterium ikkense strain GCM72 16S ribosomal RNA gene, partial sequence
- accession: DQ112664
- length: 1479
- database: nuccore
- NCBI tax ID: 336831
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Arsukibacterium ikkense GCM72 | GCA_000987775 | contig | ncbi | 336831 |
| 66792 | Arsukibacterium ikkense GCM72 | 2711768198 | draft | img | 336831 |
GC content
- @ref: 18785
- GC-content: 49.9
External links
@ref: 18785
culture collection no.: DSM 17999, LMG 23455
straininfo link
- @ref: 88643
- straininfo: 399751
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 16790334 | Arsukibacterium ikkense gen. nov., sp. nov, a novel alkaliphilic, enzyme-producing gamma-Proteobacterium isolated from a cold and alkaline environment in Greenland. | Schmidt M, Prieme A, Stougaard P | Syst Appl Microbiol | 10.1016/j.syapm.2006.05.003 | 2006 | Aerobiosis, *Cold Temperature, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Gammaproteobacteria/*classification/physiology, Greenland, Hydrogen-Ion Concentration, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology | Genetics |
| Genetics | 26044431 | Draft genome sequences of two protease-producing strains of arsukibacterium, isolated from two cold and alkaline environments. | Lylloff JE, Hansen LB, Jepsen M, Hallin PF, Sorensen SJ, Stougaard P, Glaring MA | Genome Announc | 10.1128/genomeA.00585-15 | 2015 | ||
| Phylogeny | 29111971 | Rheinheimera salexigens sp. nov., isolated from a fishing hook, and emended description of the genus Rheinheimera. | Hayashi K, Busse HJ, Golke J, Anderson J, Wan X, Hou S, Chain PSG, Prescott RD, Donachie SP | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002412 | 2017 | Bacterial Typing Techniques, Base Composition, Chromatiaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hawaii, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/*chemistry, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 18785 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17999) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17999 | |
| 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) | |
| 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 | |
| 88643 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID399751.1 | StrainInfo: A central database for resolving microbial strain identifiers |