GEO DataSets

(Submitter supplied) Xanthomonas oryzae pv. oryzae (Xoo) causes the bacterial leaf blight of rice, which leads to as much as 50% yield losses. To understand the landscape of virulence mechanisms, we constructed in planta transcriptional profiling of Xoo KACC10331 using RNA-seq. Three in planta transcriptome of Xoo KACC10331 derived from infected rice leafs were compared to three in vitro data from rich media. To obtain differentially expressed genes, we used the DEGseq package with MA-plot-based method in the R statistical environment and identified 2,094 transcripts that were significantly altered.

Organism:

Xanthomonas oryzae pv. oryzae KACC 10331

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22653

6 Samples

Download data: TXT

(Submitter supplied) The aim of the study was to understand the differences in the transcriptome of Xanthomonas oryzae pv. oryzae BXO43 vs it's XopQ mutatnt that is virulence deficient. Our study indicates a key role of XopQ in regulating biofilm to planktonic lifestyle switch in Xoo.

Organism:

Xanthomonas oryzae pv. oryzae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30323

6 Samples

Download data: TXT

(Submitter supplied) Arsenic (As) is highly toxic element to all forms of life and is a major environmental contaminant. Understanding acquisition, detoxification, and adaptation mechanisms in bacteria that are associated with host in arsenic-rich conditions can provide novel insights into dynamics of host-microbe-microenvironment interactions. In the present study, we have investigated an arsenic resistance mechanism acquired during the evolution of a particular lineage in the population of Xanthomonas oryzae pv. more...

Organism:

Xanthomonas oryzae pv. oryzae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29508

8 Samples

Download data: TXT

(Submitter supplied) To further development of our gene expression approach to establish that XooBphP acts as the major determinant of pathogenic circadian clock, we have employed whole genome microarray expression profiling as a discovery plateform to identify genes with the potential to synchronize the diurnal cycle by XooBphP to circumvent the host circadian defence response.

Organism:

Xanthomonas oryzae; Xanthomonas oryzae pv. oryzae

Type:

Expression profiling by array

Platform:

GPL27852

6 Samples

Download data: TXT

(Submitter supplied) Host-pathogen interactions, in particular during the early stage of infection, are important for the fate of boththe invading pathogen and host. In pathogens, these interactions activate diverse pahogenic signals to cause disease in the host and evade the inevitably activated immune responses of the infected host. In this study, we used in vitro assay system and RNA-seq to analyze the time-resolved genome-wide gene expressions of Xoo evoked by the interactions with rice leaf extracts. more...

Organism:

Xanthomonas oryzae pv. oryzae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28880

6 Samples

Download data: CSV

(Submitter supplied) In this study, simultaneous gene expression, of both the host and pathogen, in the incompatible interaction between rice immune line H471 and Xoo race PXO99A with strong virulence, and in compatible ones between H471’s parents and PXO99A, were analyzed in the same infected leaf blades at 1 day and 3 days post-inoculation (dpi) using the RNA-Seq technique.This study provides the first insights into the differantial gene expression profiles of both organisms interacting simultaneously in the incompatible and compatible interactions between Xanthomonas oryzae pv. more...

Organism:

Xanthomonas oryzae pv. oryzae; Oryza sativa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18696

6 Samples

Download data: TXT

(Submitter supplied) Host-pathogen interactions, in particular during the early stages of infection, are important for the fate of both the invading pathogen and host. In pathogens, these interactions activate diverse pathogenic signals to cause disease in the host and evade the inevitably activated immune responses of the infected host. In this study, we used in vitro assay system and RNA-seq to analyze the time-resolved genome-wide gene expressions of Xanthomonas oryzae pv. more...

Organism:

Xanthomonas oryzae pv. oryzae KACC 10331

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19216

14 Samples

Download data: TXT

(Submitter supplied) An attempt has been made to investigate gene expression patterns of three Xoo strains in XOM2, PXO99 (P6) and PXO86 (P2) from Phillipines, and GD1358 (C5) from China, which exhibited different virulence in 30 rice varieties, with putative virulence factors using deep sequencing. In total, 4759 transcripts were identified in this study, and 1151 and 3076 genes were differentially expressed when P6 compared with P2 and P6 compared with C5, respectively. more...

Organism:

Xanthomonas oryzae pv. oryzae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16609

3 Samples

Download data: XLS

(Submitter supplied) Xanthomonas oryzae pv. oryzae strain PXO99A, so called Xoo, is disable to infect in rice cultivar carrying Xa21 gene. A set of experiments indicated that Ax21 is quorum sensing factor in PXO99 strain. To observe fine-tuned details how Ax21 controls expression of PXO99 in response to change of cell population density, transcriptional profiling analysis was perform by using published two channel oligo Xo microarray platform (Seo et al.,2008 BMC microbiology). more...

Organism:

Xanthomonas oryzae pv. oryzae PXO99A; Xanthomonas oryzae pv. oryzicola BLS256; Xanthomonas oryzae pv. oryzae KACC 10331

Type:

Expression profiling by array

Platform:

GPL6953

30 Samples

Download data: GPR

(Submitter supplied) Transcription profiling of the DSF regulon in Xanthomonas oryzae pv. oryzae (Xoo) using wild type and the rpfF mutant. Cell-cell signaling mediated by the quorum sensing molecule known as Diffusible Signaling factor (DSF) is required for virulence of Xanthomonas group of plant pathogens. DSF in different Xanthomonas and the closely related plant pathogen Xylella fastidiosa regulates diverse traits in a strain specific manner. more...

Organism:

Xanthomonas oryzae; Xanthomonas oryzae pv. oryzae

Type:

Expression profiling by array

Platform:

GPL13231

4 Samples

Download data: TXT

(Submitter supplied) Xanthomonas oryzae pv. oryzae strain PXO99A, so called Xoo, is disable to infect in rice cultivar carrying Xa21 gene. Disrupted mutant of raxR gene, response regulator of two-component regulatory system (TCS), in Xoo was previously shown to partially retrieve back the bacterial capability to establish in Xa21 rice. RaxR was shown to mediate the expression of other rax gene operon members and also its expression is changed dependent on cell population density. more...

Organism:

Xanthomonas oryzae pv. oryzae KACC 10331; Xanthomonas oryzae pv. oryzicola BLS256; Xanthomonas oryzae pv. oryzae PXO99A

Type:

Expression profiling by array

Platform:

GPL6953

18 Samples

Download data: GPR

(Submitter supplied) In bacteria, two-component regulatory system (TCSs) is generally characterized by a simple phosphotransfer scheme, composed of a sensor domain (a histidine kinase) and a response domain (a response regulator), which is responsible for detection of external stimuli. PhoP-PhoQ TCS of Xanthomonas oryzae pv. oryzae (Xoo), a causal agent of bacterial leaf blight disease in rice, was previously shown to be negatively regulated by RaxR-RaxH, another TCS that senses population cell density as well as modulates the activity of AvrXA21, a bacterial effector, recognized by a bacterial blight resistance gene, Xa21. more...

Organism:

Xanthomonas oryzae pv. oryzicola BLS256; Xanthomonas oryzae pv. oryzae KACC 10331; Xanthomonas oryzae pv. oryzae PXO99A

Type:

Expression profiling by array

Platform:

GPL6953

18 Samples

Download data: GPR

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

Organism:

Xanthomonas oryzae pv. oryzae KACC 10331; Xanthomonas oryzae pv. oryzicola BLS256

Type:

Expression profiling by array

Platform:

GPL6123

48 Samples

Download data: TXT

(Submitter supplied) Xanthomonas oryzae pv. oryzae (Xoo) and X. oryzae pv. oryzicola (Xoc) are important bacterial pathogens of the worldwide staple and grass model, rice. Xoo invades rice vascular tissue to cause bacterial leaf blight, a serious disease of rice throughout the world. Xoc colonizes the parenchyma tissue to cause bacterial leaf steak, a disease of emerging importance. We have designed oligonucleotide probes (50-70-mers) represented 2,858 Xoo genes and 1,816 Xoc genes annotated by The Institute for Genomic Research (TIGR). more...

Organism:

Xanthomonas oryzae pv. oryzicola BLS256; Xanthomonas oryzae pv. oryzae KACC 10331

Type:

Expression profiling by array

Platform:

GPL6123

36 Samples

Download data: TXT

(Submitter supplied) Xanthomonas oryzae pv. oryzae (Xoo) and X. oryzae pv. oryzicola (Xoc) are important bacterial pathogens of the worldwide staple and grass model, rice. Xoo invades rice vascular tissue to cause bacterial leaf blight, a serious disease of rice throughout the world. Xoc colonizes the parenchyma tissue to cause bacterial leaf steak, a disease of emerging importance. We have designed oligonucleotide probes (50-70-mers) represented 2,858 Xoo genes and 1,816 Xoc genes annotated by The Institute for Genomic Research (TIGR). more...

Organism:

Xanthomonas oryzae pv. oryzae KACC 10331; Xanthomonas oryzae pv. oryzicola BLS256

Type:

Expression profiling by array

Platform:

GPL6123

12 Samples

Download data: TXT