Strain identifier
version 9.1 (current version)
General
@ref: 66250
BacDive-ID: 159427
DSM-Number: 110366
keywords: genome sequence, Bacteria, Gram-negative
description: Ramlibacter aquaticus DSM 110366 is a Gram-negative bacterium that was isolated from Secondary cooling water of nuclear reactor.
NCBI tax id
- NCBI tax id: 2780094
- Matching level: species
doi: 10.13145/bacdive159427.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Ramlibacter
- species: Ramlibacter aquaticus
- full scientific name: Ramlibacter aquaticus Props et al. 2020
@ref: 66250
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Ramlibacter
species: Ramlibacter aquaticus
full scientific name: Ramlibacter aquaticus Props et al. 2020
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 98.479
Culture and growth conditions
culture medium
- @ref: 66250
- 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: 66250
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
spore formation
- @ref: 69481
- spore formation: no
- confidence: 100
Isolation, sampling and environmental information
isolation
- @ref: 66250
- sample type: Secondary cooling water of nuclear reactor
- geographic location: Mol, Antwerp (51° 13' 11.9'' N, 05° 05' 23.9' 'E)
- country: Belgium
- origin.country: BEL
- continent: Europe
- latitude: 51.22
- longitude: 5.09
isolation source categories
- Cat1: #Engineered
- Cat2: #Industrial
- Cat3: #Cooling tower
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Ramlibacter aquaticus LMG 30558 | GCA_015159745 | contig | ncbi | 2780094 |
| 66792 | Ramlibacter aquaticus strain LMG 30558 | 2780094.3 | wgs | patric | 2780094 |
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 | 98.479 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 98.149 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 86.79 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 88.619 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 98.251 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 85.915 | no |
External links
@ref: 66250
culture collection no.: DSM 110366, LMG 30558
straininfo link
- @ref: 111921
- straininfo: 400745
literature
- topic: Genetics
- Pubmed-ID: 30728279
- title: Gene Expansion and Positive Selection as Bacterial Adaptations to Oligotrophic Conditions.
- authors: Props R, Monsieurs P, Vandamme P, Leys N, Denef VJ, Boon N
- journal: mSphere
- DOI: 10.1128/mSphereDirect.00011-19
- year: 2019
- mesh: Adaptation, Physiological/*genetics, Carbon/metabolism, Comamonadaceae/*classification/genetics/metabolism, DNA, Bacterial/genetics, Fresh Water/chemistry/microbiology, *Genome, Bacterial, Genomics, Metagenomics, Nuclear Reactors, Phosphorus/metabolism, Phylogeny, *Selection, Genetic
- topic2: Metabolism
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 | |
| 66250 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-110366 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 110366) | |
| 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 | |
| 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 | |
| 111921 | 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-ID400745.1 |