Project description:Transcriptomic profiling of a gacA mutant of Pseudomonas protegens Pf-5 in comparison to the wild-type Pf-5 strain grown on pea seed surfaces for 24h.
Project description:Transcriptomic profiling of a gacA mutant of Pseudomonas protegens Pf-5 in comparison to the wild-type Pf-5 strain grown on pea seed surfaces for 24h. Two-condition experiment, the gacA mutant compared to wild-type Pf-5 grown on pea seed surfaces for 24 h. There are three biological replicates and two flip-dye replicates for a total of six slides analyzed. Each slide contains four replicate spots per gene.
Project description:Transcriptomic profiling of an rpoS mutant of Pseudomonas protegens Pf-5 in comparison to the wild-type Pf-5 strain grown on pea seed surfaces for 24h.
Project description:Transcriptomic profiling of an rpoS mutant of Pseudomonas protegens Pf-5 in comparison to the wild-type Pf-5 strain grown on pea seed surfaces for 24h. Two-condition experiment, the rpoS mutant compared to wild-type Pf-5 grown on pea seed surfaces for 24 h. There are three biological replicates and two flip-dye replicates for a total of six slides analyzed. Each slide contains four replicate spots per gene.
Project description:Transcriptomic profiling of Pseudomonas protegens Pf-5 comparing zinc-limited culture against zinc-amended culture in M9 minimal media
Project description:Transcriptomic profiling of an rpoS mutant of Pseudomonas protegens Pf-5 in comparison to the wild-type Pf-5 strain grown in nutrient broth supplemented with 1% glycerol to OD600=2.0-2.4 (early stationary phase).
Project description:Transcriptomic profiling of an rpoS mutant of Pseudomonas protegens Pf-5 in comparison to the wild-type Pf-5 strain grown in nutrient broth supplemented with 1% glycerol to OD600=2.0-2.4 (early stationary phase). Two-condition experiment, the rpoS mutant compared to wild-type Pf-5 grown in nutrient broth supplemented with 1% glycerol to early stationary phase. There are three biological replicates and two flip-dye replicates for a total of six slides analyzed. Each slide contains three replicate spots per gene.
Project description:KaiC is the central cog of the circadian clock in Cyanobacteria. Close homologs of this protein are widespread among bacteria not known to have a circadian physiology. The function, interaction network, and mechanism of action of these KaiC homologs are still largely unknown. Here, we focus on KaiC homologs found in environmental Pseudomonas species. We characterize experimentally the only KaiC homolog present in Pseudomonas putida KT2440 and Pseudomonas protegens CHA0. Through phenotypic assays and transcriptomics, we show that KaiC is involved in osmotic and oxidative stress resistance in P. putida and in biofilm production in both P. putida and P. protegens.
Project description:The GacS/GacA signal transduction system is a central regulator in Pseudomonas spp., including the biological control strain P. fluorescens Pf-5, in which GacS/GacA controls the production of secondary metabolites and exoenzymes that suppress plant pathogens. A whole genome oligonucleotide microarray was developed for Pf-5 and used to assess the global transcriptomic consequences of a gacA mutation in P. fluorescens Pf-5. In cultures at the transition from exponential to stationary growth phase, GacA significantly influenced transcript levels of 632 genes, representing more than 10% of the 6147 annotated genes in the Pf-5 genome. Transcripts of genes involved in the production of hydrogen cyanide, the antibiotic pyoluteorin, and the extracellular protease AprA were at a low level in the gacA mutant, whereas those functioning in siderophore production and other aspects of iron homeostasis were significantly higher in the gacA mutant than in wild-type Pf-5. Notable effects of gacA inactivation were also observed in the transcription of genes encoding components of a type VI secretion system and cytochrome C oxidase subunits. Two novel gene clusters expressed under the control of gacA were identified from transcriptome analysis, and we propose global-regulator-based genome mining as an approach to decipher the secondary metabolome of Pseudomonas spp. In this series two conditions have been analyzed. A gacA mutant of Pseudomonas fluorescens Pf-5 was harvested at early (OD 0.5) and late (OD 2.4) time points and compared to wild-type Pf-5 harvested in parallel. For each slide, an experimental RNA sample from a gacA mutant was labeled with Cy3 or Cy5 and was hybridized with a reference RNA sample from wild-type Pf-5 labeled with the other Cy dye. There are six slides per condition. Each condition is represented by three biological replicates. There are two flip-dye replicates for each biological replicate. Each slide contains three replicate spots per gene.
