GEO DataSets

(Submitter supplied) Pseudomonas syringae pv. tomato DC3000 is a model pathogen infecting tomato and Arabidopsis plants. Genes encoding the type III secretion system and substrate proteins (collectively called TTSS genes) of this bacterium are induced in plants and in minimal medium (MM). The induction of TTSS genes is mediated by HrpL, an alternative sigma factor recognizing the hrp box in the promoter of TTSS genes. The transcription of hrpL is activated by HrpR and HrpS, two homologous DNA binding proteins encoded by the hrpRS operon. more...

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by array

Platform:

GPL3496

11 Samples

Download data: FTR, TIFF, TXT

(Submitter supplied) We implemented transcriptional analysis methods using cDNA and high-throughput sequencing data to identify HrpL-regulated genes for six strains of Pseudomonas syringae

Organism:

Pseudomonas syringae

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL17159 GPL17160

24 Samples

Download data: TXT

(Submitter supplied) The bacterial Lon protease participates in a variety of biological processes. In Pseudomonas syringae, mutation of lon is known to activate hrpL and a few hrpL-regulated genes in the rich medium. The elevated expression of hrpL and hrpL-regulated genes results from of increased stability of HrpR, the transcriptional activator of hrpL, in the lon mutant. Here we conducted a microarray analysis to determine genes that are differently expressed in the lon- mutant of P. more...

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by array

Platform:

GPL3496

3 Samples

Download data: FTR, NDF, NGD, TIFF, TXT

(Submitter supplied) Expression profiling of wild-type plants and mutants with defects in key components of the defense signaling network was used to model the Arabidopsis network 24 hours after infection by Pseudomonas syringae pv. maculicola strain Psm ES4326. Results using the Affymetrix ATH1 array revealed that expression levels of most pathogen-responsive genes were affected by mutations in coi1, ein2, npr1, pad4, or sid2. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL3638

92 Samples

Download data: GPR

(Submitter supplied) ra04-07_pgpr - profiling of the root architecture response to phyllobacterium - Experiment 1 : Which genes are up- or down-regulated in Arabidopsis thaliana cultivated in vitro with increased lateral root development in response to Phyllobacterium STM196 inoculation. Experiment 2 : Which genes are up- or down-regulated during the ISR triggered by a rhizobacteria, in comparison with those affected by a pathogenic interaction. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL5337

4 Samples

Download data: GPR

(Submitter supplied) ra04-07_pgpr - profiling of the pgpr induced systemic resistance (isr) - Experiment 1 : Which genes are up- or down-regulated in Arabidopsis thaliana cultivated in vitro with increased lateral root development in response to Phyllobacterium STM196 inoculation. Experiment 2 : Which genes are up- or down-regulated during the ISR triggered by a rhizobacteria, in comparison with those affected by a pathogenic interaction. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL5337

10 Samples

Download data: GPR

(Submitter supplied) The Arabidopsis Pathoarray 464_001 (GPL3638) was used to compare response of Col-0, pad4-1 (Zhou et al., 1998; Jirage et al., 1999) and sid2-2 (Wildermuth et al., 2001) to Pseudomonas syringae pv. tomato DC3000 hrcC mutant. SA production is drastically reduced in sid2 mutants. PAD4 is required for SA-mediated responses. The results suggested that the SA increase triggered by MAMPs is one major component in the MAMPs-triggered signaling mechanism. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL3638

24 Samples

Download data: GPR

(Submitter supplied) Background Dickeya dadantii is a necrotrophic pathogen causing disease in many plants. Previous studies have demonstrated that the type III secretion system (T3SS) of D. dadantii is required for full virulence. HrpL is an alternative sigma factor that binds to the hrp box promoter sequence of T3SS genes to up-regulate their expression. Methodology/Principal Findings To explore the inventory of HrpL-regulated genes of D. more...

Organism:

Dickeya dadantii

Type:

Expression profiling by array

Platform:

GPL8881

20 Samples

Download data: GPR

(Submitter supplied) The bacterial type III secretion system (TTSS) is dedicated to directly effect host cell pathways by pathogens. In order to identify the key host responses of the various parts of the TTSS, we utilized expression profiling of a lung pneumocytes cell line, A549, exposed to various isogenic mutant strains of Pseudomonas aeruginosa PAK. We have devised a novel filtering method to isolate the key responses to the effector proteins as well as the translocation machinery. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS1022

Platform:

GPL8300

16 Samples

Download data

Analysis of A549 lung pneumocytes after infection with Pseudomonas aeruginosa (PA) PAK mutants deleted for various components of the type III secretion system (TTSS). Mutants in TTSS effectors and translocators studied. PA causes serious respiratory infections in cystic fibrosis patients.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 7 genotype/variation, 2 infection sets

Platform:

GPL8300

Series:

GSE1469

16 Samples

Download data

(Submitter supplied) DC3000 cultures were grown under highly controlled conditions and after the addition of iron citrate or sodium citrate to the media. In the cultures supplemented with iron, we found that cell-associated iron increased rapidly while culture densities were not significantly different over 4 hours when compared to cultures with sodium citrate added. Microarray analysis of samples taken from before and after the addition of either sodium citrate or iron citrate identified 386 differentially regulated genes with high statistical confidence. more...

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by array

Platform:

GPL7590

30 Samples

Download data: CEL

(Submitter supplied) Pseudomonas syringae uses two-component system RhpRS to regulate the expression of type III secretion system (T3SS) genes and bacterial virulence. However, the molecular mechanism and the regulons of RhpRS have yet to be fully elucidated. Here we show that RhpS functions as an autokinase, an RhpR kinase, and a P-RhpR phosphatase. RhpR can also be phosphorylated by small phosphodonor acetyl phosphate. more...

Organism:

Pseudomonas savastanoi pv. phaseolicola

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18810

4 Samples

Download data: TXT

(Submitter supplied) PSPTO_2222 and PSPTO_2222-2223 deletions mutants were grown in MM or KB, and their expression profiles were analyzed.

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by array

Platform:

GPL3496

9 Samples

Download data: CALLS, FTR, PAIR, TIFF

(Submitter supplied) Bacteria relies on two-component systems (TCSs) to respond to a wide range of stimuli or environmental cues for their survival and virulence. However, the functions and synergistic actions of TCSs in genomic level remains unclear. Here, in model phytopathogen Pseudomonas syringae, by integrating multiomics data, we developed a network-based PSTCSome (Pseudomonas syringae two-component systems regulome) to identify functions and crosstalk among global TCSs under either virulence suppressing (King’s B medium, KB) or activating conditions (minimal medium, MM). more...

Organism:

Pseudomonas savastanoi pv. phaseolicola 1448A

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:

GPL24018

346 Samples

Download data: NARROWPEAK, XLSX