Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomes of pssu(z)12 mutant from phytophthora sojae P6497 at mycelium stage

ABSTRACT: Transcriptomes of pssu(z)12 mutant from phytophthora sojae P6497 at mycelium stage

PROVIDER: PRJNA524338 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8633160_1.fastq.gz	Fastqsanger.gz
	SRR8633160_2.fastq.gz	Fastqsanger.gz
	SRR8633159_1.fastq.gz	Fastqsanger.gz
	SRR8633159_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 4 of 4

Similar Datasets

Transcriptomes of pssu(z)12 mutant from phytophthora sojae P6497 at mycelium stage

Project description: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.

2019-11-25 | GSE127207 | GEO

H3K27me3 in Phytophthora sojae P6497 and its pssu(z)12 mutant at mycelium stage

Project description: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.

2019-11-25 | GSE127206 | GEO

Transcriptomes of two phytophthora species at mycelium stage

Project description:Purpose and methods:Transcriptome profiling of Phytophthora sojae P6497 mycelium (3-days old) and Phytophthora infestans T30-4 mycelium (6-days old) were generated to find out the relationship between 6mA methylation and gene expression. RNA-seq data was mapped using Tophat2, and gene expression data was generated by Cufflinks. Transcriptome profiling of P. sojae psdamt3 mutant T9 (lost 374bp by CRISPR/Cas9) was generated to check the differential expressed genes (DEGs) between the mutant and wild-type P. sojae P6497. Read counts was calculated using featureCounts, and DEGs was calculated using DEseq2 with |log2FC|≥1, y-axis is FDR<0.05. Conclusions: 6mA is associated with lowly expressed genes. Examination of differentially expressed genes (DEGs) in psdamt3 uncovers a total of 3156 genes, with 1544 genes up-regulated and 1622 genes down-regulated.

2018-09-29 | GSE116090 | GEO

MeDIP-seq of two phytophthora species at mycelium stage

Project description:We report the 6mA methylation profiling in two Phytophthora species and one psdamt3 mutant. Genomic DNA of Phytophthora sojae P6497 mycelium (3-days old), Phytophthora infestans T30-4 mycelium and psdamt3 mutant T9 (lost 374bp by CRISPR/Cas9) was extracted and sonicated to 200-400bp using Biorupter UCD-600. The antibody sysy 202003 was used to immunoprecipitation. We find that 6mA is associated with lowly expressed genes in two Phytophthora species. 6mA methylome is preferentially associated with TEs, the genes and intergenic regions that form the gene-sparse compartments of Phytophthora genomes. In the psdamt3 mutant, 6mA level reduced in TEs and illustrates the uneven reduction pattern around the TSS.

2018-09-29 | GSE116089 | GEO

Phytophthora sojae strain:P6497

Project description:Phytophthora sojae strain:P6497 Raw sequence reads

| PRJNA350566 | ENA

Phytophthora sojae cultivar:P6497

Project description:Phytophthora sojae cultivar:P6497 Raw sequence reads

| PRJNA521766 | ENA

Phytophthora sojae strain:P6497

Project description:Phytophthora sojae strain:P6497 Genome sequencing and assembly

| PRJNA17989 | ENA

Phytophthora sojae strain:P6497

Project description:Phytophthora sojae strain:P6497 Genome sequencing and assembly