GEO DataSets

(Submitter supplied) We report RNA-seq data for four Pseudomonas fluorescens SBW25 types: SBW25 (wild type) and dervied types 6A4, 6B4-Cap- and 6B4-Cap+. The aim of the study is to see the effect of a mutation in rpoD (carried by 6B4) on the transcriptome.

Organism:

Pseudomonas [fluorescens] SBW25

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25322

12 Samples

Download data: TXT

(Submitter supplied) We report mRNA expression data from Pseudomonas fluorescens SBW25 wild type and two evolved strains (Beaumont et al., 2009). The evolution of one of these strains saw the emergence of colony switching; 1B4 switches rapidly between two different colony phenotypes. These two phenotypes were found to be genetically identical. Thus, in order to gain insight into epigenetic mechanisms of switching, we were interested in identifiying gene expression differences between ancestors and the 1B4 colony phenotypes.

Organism:

Pseudomonas [fluorescens] SBW25

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17454

4 Samples

Download data: TXT, XLSX

(Submitter supplied) Pseudomonas species are ubiquitous in plant-associated environments and produce an array of volatiles, enzymes and antimicrobials. The biosynthesis of many metabolites is regulated by the GacS/GacA two-component regulatory system. Transcriptome analysis of Pseudomonas fluorescens SBW25 revealed that 702 genes were differentially regulated (fold change>4, P<0.0001) in a gacS::Tn5 mutant, with 300 and 402 genes up- and down-regulated, respectively. more...

Organism:

Pseudomonas [fluorescens] SBW25

Type:

Expression profiling by array

Platform:

GPL16495

8 Samples

Download data: TXT

(Submitter supplied) Mature tRNA pools were measured using an adaptation of YAMAT-seq (Shigematsu et al., 2017; doi:10.1093/nar/gkx005 ) and further described in (Ayan et al., 2020; doi:10.7554/eLife.57947) in eight strains dervied from the model bacterium, Pseudomonas fluorescens SBW25. The aim of the experiment was to determine the effect on the mature tRNA pool of (i) removing multi-copy tRNA genes by genetic engineering, and (ii) duplicating tRNA genes during a subsequent, compensatory evolution experiment. more...

Organism:

Pseudomonas fluorescens

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL28120

24 Samples

Download data: XLSX