GEO DataSets

(Submitter supplied) Plant pathogenic bacteria encounter a drastic increase in apoplastic pH during the early stages of plant immunity. The effects of alkalization on pathogen-host interactions have not been comprehensively characterized. Here we used a global transcriptomic approach to assess the impact of environmental alkalization on Pseudomonas syringae pv. tomato DC3000 in vitro. In addition to the Type 3 Secretion System (T3SS), we found expression of genes encoding other virulence factors such as iron uptake, and coronatine biosynthesis to be strongly affected by environmental alkalization. more...

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by high throughput sequencing

Platform:

GPL34917

18 Samples

Download data: TXT

(Submitter supplied) The model Gram-negative plant pathogen Pseudomonas syringae utilizes hundreds of transcription factors (TFs) to manipulate its functional processes, including virulence and metabolic pathways to control its infection to host plants. Although the molecular mechanisms of regulators have been studied for decades, the comprehensive understanding throughout the genome-wide TFs in P. syringae remains uncertain. more...

Organism:

Pseudomonas syringae pv. syringae B728a; Pseudomonas syringae pv. tomato str. DC3000; Pseudomonas savastanoi pv. phaseolicola 1448A; Pseudomonas syringae pv. actinidiae str. Shaanxi_M228

Type:

Genome binding/occupancy profiling by high throughput sequencing

4 related Platforms

396 Samples

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(Submitter supplied) Purpose: The outcome of host–pathogen interactions is thought to reflect the offensive and defensive capabilities of both players. When plants interact with Pseudomonas syringae, several well-characterized virulence factors contribute to early bacterial pathogenicity, including the type III secretion system (T3SS), which must be activated by signals from the plant and environment to allow the secretion of virulence effectors. more...

Organism:

Pseudomonas sp.; Pseudomonas syringae pv. actinidiae str. CRAFRU8.43; Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by array

Platform:

GPL29584

36 Samples

Download data: TXT

(Submitter supplied) This RNA-seq dataset is from RNA sample collected using the physical seperation technique previously used in our lab (Lovelace 2018). The goal is to look at DC3000 AlgU regulon under pattern triggered immunity.

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24578

18 Samples

Download data: TXT

(Submitter supplied) Purpose: Pseudomonas syringae pv. actinidiae (Psa) is a phytopathogen that causes devastating bacterial canker in kiwifruit. Among five biovars defined by genetic, biochemical and virulence traits, Psa3 is the most aggressive and is responsible for the most recent reported outbreaks, but the molecular basis of its heightened virulence is unclear. A custom P. syringae multi-strain whole-genome microarray platform, encompassing biovars Psa1, Psa2 and Psa3 and the well-established model P. more...

Organism:

Pseudomonas sp.; Pseudomonas syringae pv. tomato; Pseudomonas syringae pv. actinidiae

Type:

Expression profiling by array

Platform:

GPL29584

60 Samples

Download data: TXT

(Submitter supplied) Blue light perception by epiphytic Pseudomonas syringae drives chemoreceptor expression enabling efficient plant infection

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by array

Platform:

GPL23823

16 Samples

Download data: TXT

(Submitter supplied) Understanding the gene regulation of plant pathogens is crucial for pest control and thus global food security. An integrated understanding of bacterial gene regulation in the host is dependent on multi-omic datasets, but these are largely lacking. Here, we simultaneously characterized the transcriptome and proteome of a bacterial pathogen in plants. We found a number of bacterial processes affected by plant immunity at the transcriptome and proteome levels. more...

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27611

12 Samples

Download data: TXT

(Submitter supplied) To explore the effect of light perception on Pseudomonas syringae pv. tomato DC3000 at a global level, we carried out microarray hybridization experiments. We hybridize custom-designed microarrays (Agilent Technologies) with probes isolated from PsPto after a 10 min treatment with either 20 μE/m2s blue light, 20 μE/m2s red light, 70 μE/m2s white light, or cells kept in the darkness.

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by array

Platform:

GPL23823

16 Samples

Download data: TXT

(Submitter supplied) Plant pathogens can cause serious diseases that impact global agriculture1. Understanding how the plant immune system naturally restricts pathogen infection holds a key to sustainable disease control in modern agricultural practices. However, despite extensive studies into the molecular and genetic basis of plant defense against pathogens since the 1950s2,3, one of the most fundamental questions in plant pathology remains unanswered: how resistant plants halt pathogen growth during immune activation. more...

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23983

114 Samples

Download data: TXT

(Submitter supplied) Plant pathogens can cause serious diseases that impact global agriculture1. Understanding how the plant immune system naturally restricts pathogen infection holds a key to sustainable disease control in modern agricultural practices. However, despite extensive studies into the molecular and genetic basis of plant defense against pathogens since the 1950s2,3, one of the most fundamental questions in plant pathology remains unanswered: how resistant plants halt pathogen growth during immune activation. more...

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23977

12 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23983 GPL23977

126 Samples

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(Submitter supplied) We develop a protocol for extracting P. syringae transcriptome from infected A. thaliana tissue through physical separation by low speed centrifugation. We use this protocol to compare the RNASeq transcriptome profiles of DC3000 during naïve host infection and exposure to pattern triggered immunity at 1, 3, and 5 hours post inoculation

Organism:

Pseudomonas syringae pv. tomato str. DC3000

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24578

21 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) 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) 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) 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) Arrays of this design have barcodes that begin with 16042459 or 2542459. Orientation: Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software. The ID column represents the Agilent Feature Extraction feature number. Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface). more...

Organism:

Pseudomonas syringae pv. tomato str. DC3000

2 Series

32 Samples

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