GEO DataSets

(Submitter supplied) In order to obtain a global view about the strategies used by phytopathogenic bacteria, in response to physiologically relevant temperature changes. We used the DNA microarray technology to compare gene expression profile in the model bacterial pathogen P. syringae pv. phaseolicola NPS3121 grown at 18 ºC and 28ºC.

Organism:

Pseudomonas savastanoi pv. phaseolicola

Type:

Expression profiling by array

Platform:

GPL7115

6 Samples

Download data: GPR

(Submitter supplied) Many genes involve in pathogenicity and virulence are induced only in plant or in the presence of host components. Bean leaf extract was obtained from healthy bean leaves. In this work we investigated the effect of bean leaf extract on the transcriptomic profile of the bacterium, when grown at low temperature in minimal medium with or without extract from healthy bean leaves.

Organism:

Pseudomonas savastanoi pv. phaseolicola

Type:

Expression profiling by array

Platform:

GPL7115

6 Samples

Download data: GPR

(Submitter supplied) Many genes involve in pathogenicity and virulence are induced only in plant or in the presence of host components. Plant apoplast is the primary site of infection for P. syringae, which obtain nutrients directly from apoplastic fluid of host plants. In this work we investigated the effect of apoplastic fluid on the transcriptomic profile of the bacterium, when grown at low temperature in minimal medium with or without apoplastic fluid extracted from healthy bean leaves. more...

Organism:

Pseudomonas savastanoi pv. phaseolicola

Type:

Expression profiling by array

Platform:

GPL7115

6 Samples

Download data: GPR

(Submitter supplied) P. syringae pv. phaseolicola is the causal agent of the halo blight disease of beans (Phaseolus vulgaris L). The disease attacks both foliage and pods of plant host. Many genes involve in pathogenicity and virulence are induced only in plant or in the presence of host components. In this work we investigated the effect of bean pod extract on the transcriptomic profile of the bacterium, when grown at low temperature in minimal medium with or without bean pod extract.

Organism:

Pseudomonas savastanoi pv. phaseolicola

Type:

Expression profiling by array

Platform:

GPL7115

6 Samples

Download data: GPR

(Submitter supplied) P. syringae pv. phaseolicola, the causal agent of halo blight disease in bean, produces a toxin known as phaseolotoxin, whose synthesis involves the product of some of the genes found within the Pht region. This region, considered a pathogenicity island, comprises 23 genes arranged in five transcriptional units; two single-gene units (argK, phtL) and three arranged as operons (phtA, phtD, phtM), most with unknown function. more...

Organism:

Pseudomonas savastanoi pv. phaseolicola

Type:

Expression profiling by array

Platform:

GPL7115

6 Samples

Download data: GPR, 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) 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) The plant pathogen Pseudomonas syringae pv. syringae B728a grows and survives on leaf surfaces and in the leaf apoplast of its host, bean. Global transcriptome profiling was used to understand the contribution of distinct regulators to B728a fitness and pathogenicity. We performed a transcriptome analysis of B728a and nine regulator mutants recovered from the surface and interior of leaves and exposed to various environmental stresses in culture. more...

Organism:

Pseudomonas syringae pv. syringae B728a; Pseudomonas syringae

Type:

Expression profiling by array

Platform:

GPL16328

165 Samples

Download data: PAIR, TXT

(Submitter supplied) Some strains of the foliar pathogen Pseudomonas syringae are adapted for growth and survival on leaf surfaces and in the leaf interior. Global transcriptome profiling was used to evaluate if these two habitats offer distinct environments for bacteria and thus present distinct driving forces for adaptation. Further transcriptome profiling was performed to understand the various environmental conditions that P. more...

Organism:

Pseudomonas syringae pv. syringae B728a

Type:

Expression profiling by array

Platform:

GPL16328

42 Samples

Download data: PAIR, TXT

(Submitter supplied) This RNA-seq analysis examined the global effect of (p)ppGpp in P. syringae under the T3SS-inducing condition. The (p)ppGpp mutant showed differential expression of more than 30% genes in the genome, which include significant down-regulation of T3SS genes and those required for cell growth and viability.

Organism:

Pseudomonas syringae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27977

12 Samples

Download data: TXT

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

Type:

Expression profiling by array

Platform:

GPL29584

36 Samples

Download data: 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:

GPL17160 GPL17159

24 Samples

Download data: TXT

(Submitter supplied) Common bean (Phaseolus vulgaris L.) is an important crop both as a source of protein and other nutrients for human nutrition and as a nitrogen fixer that benefits sustainable agriculture. This crop is affected by halo blight disease, caused by the bacterium Pseudomonas syringae pv. phaseolicola (Pph), which can lead to 45% yield losses. The resistance of common bean to Pph is conferred by six loci (Pse-1 to Pse-6) and minor-effect quantitative trait loci (QTLs); however, information is lacking on the molecular mechanisms implicated in this pathosystem. more...

Organism:

Phaseolus vulgaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18673

4 Samples

Download data: XLSX

(Submitter supplied) Temperature is a crucial environmental signal that govers the occurrence of Vibrio cholerae and cholera outbreaks. To understand how temperature impacts the transcriptome of V. cholerae we performed whole-genome level transcriptional profiling using custom microarrays on cells grown at human body temperature (37 C) then shifted to temperatures V. cholerae experience in the environment (15 C and 25 C).

Organism:

Vibrio cholerae

Type:

Expression profiling by array

Platform:

GPL20916

18 Samples

Download data: GPR

(Submitter supplied) Pseudomonas aeruginosa strain PAO1 was grown at 22°C and 37°C in Lysogeny broth (LB) and RNA was hybridized on the Affymetrix P. aeruginosa chip.

Organism:

Pseudomonas aeruginosa; Pseudomonas aeruginosa PAO1

Type:

Expression profiling by array

Platform:

GPL84

6 Samples

Download data: CEL, TXT

(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) 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) Arctic Mesorhizobium strain N33 was isolated from nodules of the Oxytropis arctobia in Canada’s eastern Arctic. This symbiotic bacterium can grow from 0 to 30°C, is one of the best known cold-adapted rhizobia, and can fix nitrogen at ~10°C. Here, the key molecular mechanisms of cold adaptation were investigated by determining changes in transcript profiles when cells were treated under eight different temperature conditions, including both sustained and transient cold treatments compared with cells grown at room temperature.

Organism:

Mesorhizobium sp. N33

Type:

Expression profiling by array

Platform:

GPL19113

42 Samples

Download data: GPR