GEO DataSets

(Submitter supplied) Purpose and methods:Transcriptome profiling of Phytophthora sojae pssu(z)12 mutant T34 (lost 561bp by CRISPR/Cas9) mycelium (3-days old) were generated to find out the relationship between H3K27me3 and gene expression on Avr1b locus. Wild-type P. sojae P6497 was took as a comparative control. RNA-seq data was mapped using Tophat2, and gene expression data was generated by Cufflinks. Transcriptome profiles were displayed using IGV browser.

Organism:

Phytophthora sojae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25217

2 Samples

Download data: GTF, XLSX

(Submitter supplied) We report the H3K27me3 profile on Avr1b locus in two Phytophthora sojae strains P6497 and pssu(z)12 mutant. Nuclei of Phytophthora sojae P6497 and pssu(z)12 mutant T34 (lost 561bp by CRISPR/Cas9) mycelium (3-days old) was extracted and digested to 200-400bp using micrococcal nuclease (MNase: NEB M0247S). The antibody Millipore 07-449 was used to immunoprecipitation. We find significant accumulation of H3K27me3 at Avr1b locus in Avr1b silencing strain P6497 and clear H3K27me3 depletion at Avr1b locus in Avr1b unsilenced strain pssu(z)12 mutant T34.

Organism:

Phytophthora sojae

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25217

9 Samples

Download data: BW

(Submitter supplied) Hypocotyls of soybean (Glycine max) seedlings of cultivar Williams were inoculated with mycelia of the oomycete pathogen Phytophthora sojae grown in liquid V8 medium or the hypocotyls were mock inoculated. After 12 hours, the sites of inoculation were excised from the hypocotyls and frozen for RNA extraction. Phytophthora sojae mycelia used for inoculation was saved for RNA extraction also

Organism:

Glycine max; Phytophthora sojae

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL30549 GPL30550 GPL30548

20 Samples

Download data: XLSX

(Submitter supplied) Examination of soybean hypocotyls, G. max cv. Harosoy (Rps7), at 3, 6, 12, 24 and 48 hours after inoculation with P. sojae, race 2, isolate P6497 Patterns of Gene Expression Upon Infection of Soybean Plants by Phytophthora sojae. P. Moy, D. Qutob, B. P. Chapman, I. Atkinson, and M. Gijzen. Pages 1051-1062. Publication no. M-2004-0728-01R. Molecular Plant-Microbe Interactions, October 2004, Volume 17, Number 10. more...

Organism:

Glycine max; Phytophthora sojae

Type:

Expression profiling by array

Platform:

GPL1206

50 Samples

Download data: TIFF

(Submitter supplied) Total RNA extracted from Phytophthora sojae (strain P6497) and infected soybean hypocotyls (cultivar Harosoy) provided template for synthesis of cDNA probes used in the microarray hybridizations. Infected plant hypocotyls were sampled 6 h, 12 h, 24 h, and 48 h after inoculation. Mycelia were grown on synthetic media (H&S) or vegetable juice media (V8). Zoospores were sampled at 0 h, 2 h and 6 h after inducing encystment and germination by agitation. more...

Organism:

Phytophthora sojae; Glycine max

Type:

Expression profiling by array

Platform:

GPL4592

28 Samples

Download data: CEL, CHP

(Submitter supplied) Plant pathogens secreted effector proteins to overcome host immunity system and gain access to colonization. Although more than 300 hundred of RxLR effectors were encoded by the devastating soybean pathogen Phytophthora sojae, the patterns of conditionally expressed effector genes were well programmed. However, the effector gene regulation mechanisms were not fully dissected. In this study, we identified the H3K36me3 methyltransferase PsKMT3. more...

Organism:

Phytophthora sojae strain P6497

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32312

10 Samples

Download data: CSV

(Submitter supplied) Plant pathogens secreted effector proteins to overcome host immunity system and gain access to colonization. Although more than 300 hundred of RxLR effectors were encoded by the devastating soybean pathogen Phytophthora sojae, the patterns of conditionally expressed effector genes were well programmed. However, the effector gene regulation mechanisms were not fully dissected. In this study, we identified the H3K36me3 methyltransferase PsKMT3. more...

Organism:

Phytophthora sojae strain P6497

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL32311

7 Samples

Download data: BW

(Submitter supplied) The process of RNA splicing influences many physiological processes including plant immunity. However, how plant parasites manipulate host RNA splicing process remains unknown. Here we demonstrate that PsAvr3c, an avirulence effector from oomycete plant pathogen Phytophthora sojae, physically binds to and stabilizes soybean (Glycine max) serine/lysine/arginine rich proteins GmSKRPs in vivo. The SKRPs are novel proteins that associate with spliceosome components, and are negative regulators of plant immunity. more...

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21998

9 Samples

Download data: BW

(Submitter supplied) To identify soybean genes and QTLs associated with quantitative resistance to infection by the oomycete pathogen Phytophthora sojae, we conducted a very large-scale microarray experiment using 2522 Affymetrix GeneChips. The experiment involved assaying a total of 298 soybean recombinant inbred lines together with internal checks.

Organism:

Glycine max

Type:

Expression profiling by array

Platform:

GPL4592

2522 Samples

Download data: CEL