Strain identifier
BacDive ID: 3831
Type strain: 
Species: Rhodonellum ikkaensis
Strain Designation: GCM 70
Strain history: <- P. Stougaard,Denmark; GCM 70 <- M. Schmidt
NCBI tax ID(s): 336829 (species)
version 9.1 (current version)
General
@ref: 7225
BacDive-ID: 3831
DSM-Number: 17997
keywords: genome sequence, 16S sequence
description: Rhodonellum ikkaensis GCM 70 is a bacterium that was isolated from Ikaite tufa columns.
NCBI tax id
- NCBI tax id: 336829
- Matching level: species
strain history
- @ref: 7225
- history: <- P. Stougaard,Denmark; GCM 70 <- M. Schmidt
doi: 10.13145/bacdive3831.20240916.9.1
Name and taxonomic classification
@ref: 7225
domain: Bacteria
phylum: Bacteroidetes
class: Cytophagia
order: Cytophagales
family: Cyclobacteriaceae
genus: Rhodonellum
species: Rhodonellum ikkaensis
full scientific name: Rhodonellum ikkaensis
strain designation: GCM 70
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 90.602 | |
| 69480 | 94.989 | negative |
Culture and growth conditions
culture medium
- @ref: 7225
- 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: 7225
- growth: positive
- type: growth
- temperature: 15
Physiology and metabolism
spore formation
- @ref: 69481
- spore formation: no
- confidence: 100
Isolation, sampling and environmental information
isolation
- @ref: 7225
- sample type: Ikaite tufa columns
- geographic location: Ikka Fjord
- country: Greenland
- origin.country: GRL
- continent: North America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Environmental | #Terrestrial | #Geologic |
taxonmaps
- @ref: 69479
- File name: preview.99_5353.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15774;96_2595;97_3178;98_3991;99_5353&stattab=map
- Last taxonomy: Rhodonellum
- 16S sequence: DQ112663
- Sequence Identity:
- Total samples: 984
- soil counts: 161
- aquatic counts: 641
- animal counts: 175
- plant counts: 7
Sequence information
16S sequences
- @ref: 7225
- description: Rhodonellum ikkaensis strain GCM70 16S ribosomal RNA gene, partial sequence
- accession: DQ112663
- length: 1353
- database: nuccore
- NCBI tax ID: 336829
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Rhodonellum ikkaensis DSM 17997 | GCA_900107465 | scaffold | ncbi | 336829 |
| 66792 | Rhodonellum ikkaensis strain DSM 17997 | 336829.5 | wgs | patric | 336829 |
| 66792 | Rhodonellum ikkaensis DSM 17997 | 2693429890 | draft | img | 336829 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 94.989 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.456 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 86.471 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 85.938 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 97.972 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 90.602 | no |
External links
@ref: 7225
culture collection no.: DSM 17997
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 7225 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17997) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17997 | |
| 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 | |
| 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) | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 |