Oryza sativa
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ABSTRACT:
OTHER RELATED OMICS DATASETS IN: E-GEOD-39298
PROVIDER: PRJNA170511 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Comparison of transcriptome profile between wild-type and dst mutant plants
| PRJNA106869 | ENA
Project description:Comparison of transcriptome profile between wild-type and Epi-df mutant plants
2015-12-01 | E-GEOD-39298 | ExpressionAtlas
Project description:Comparison of transcriptome profile between wild-type and dao mutant plants
| PRJNA175781 | ENA
Project description:Genome-wide maps of H3K27me3 in WT (wild type) and Epi-df (mutant) rice
| PRJNA175323 | ENA
Project description:We identified and characterized a rice epigenetic mutant Epi-df which exhibits a dwarf stature and various floral defects that are inherited in a dominant fashion. We demonstrated that Epi-df participates in Polycomb repressive complex 2 (PRC2) mediated gene silencing. Epigenetic mutations results in ectopic expression of Epi-df and pleiotropic developmental defects in mutant plants. Moreover, ectopic expression of Epi-df leads to mis-regulated H3K27me3 and changed expression of hundreds of genes involved in a wide range of biological processes. We used microarrays to identify differentially expressed genes in Epi-df.
2012-07-13 | GSE39298 | GEO
Project description:We identified and characterized a rice epigenetic mutant Epi-df which exhibits a dwarf stature and various floral defects that are inherited in a dominant fashion. We demonstrated that Epi-df participates in Polycomb repressive complex 2 (PRC2) mediated gene silencing. Epigenetic mutations results in ectopic expression of Epi-df and pleiotropic developmental defects in mutant plants. Moreover, ectopic expression of Epi-df leads to mis-regulated H3K27me3 and changed expression of hundreds of genes involved in a wide range of biological processes. We used microarrays to identify differentially expressed genes in Epi-df. For genome-wide expression analysis of Epi-df, three replicates of WT and Epi-df samples (RNA from 3-week-old seedlings) were analyzed on Affymetrix Genechip® Rice Genome arrays by an Affymetrix service facility (CapitalBio Corporation) according to the manufacturer’s protocols. Genes showing a 2-fold change with a q-value ≤ 0.05 were considered to be differentially expressed.
2012-07-12 | E-GEOD-39298 | biostudies-arrayexpress
Project description:DNA methylation and histone H3 lysine 9 dimethylation (H3K9me2) are important epigenetic repression marks for silencing transposons in heterochromatin and regulating gene expression in plant development. However, the mechanistic relationship to other repressive marks, such as histone H3 lysine 27 trimethylation (H3K27me3), is unclear. OsFIE1 (Fertilization Independent Endosperm 1) encodes an Esc-like core component of the Polycomb repressive complex 2 (PRC2), which is involved in H3K27me3-mediated gene repression. Here, we identify a gain-of-function epi-allele (Epi-df) of rice OsFIE1; this allele exhibits a dwarf stature and various floral defects that are inherited in a dominant fashion. We found that Epi-df has no changes in its nucleotide sequence, but is hypo-methylated in the promoter and the 5' region of OsFIE1 and has reduced H3K9me2 and increased H3K4me3. In Epi-df, OsFIE1 was ectopically expressed and its imprinting status was disrupted. OsFIE1 interacted with rice E(z) homologs, consistent with its role in H3K27me3 repression. Ectopic expression of OsFIE1 in Epi-df resulted in alteration of H3K27me3 levels in hundreds of genes. Therefore, this work identifies a novel epi-allele involved in H3K27me3-mediated gene repression, that itself is highly regulated by histone H3K9me2, thereby shedding light on the link between two important epigenetic marks regulating rice development. We report the application of ChIP-Seq technology for high-throughput profiling of histone modifications in WT (wild type) and Epi-df (mutant). We demonstrate that the H3K27me3 status is perturbed at target genes and leads to mis-regulated expression in Epi-df.
2013-12-04 | E-GEOD-40674 | biostudies-arrayexpress
Project description:To reveal the underlying molecular mechanism of jasmonate inhibits gibberellins signaling in rice, we performed transcriptional profiling of wild type nipponbare and mutant coi1-13 plants on a global scale using the Affymetrix GeneChip Rice Genome Array
2011-12-01 | GSE29577 | GEO
Project description:Cross-kingdom molecular exchange between hosts and interacting microbes is essential for the survival of both plants and their pathogens. Recent studies showed plants transfer their small RNAs (sRNAs) and massager RNAs (mRNAs) into fungal pathogens to suppress infection. However, whether and how plants send defense proteins into pathogen cells remains unknown. Here, we show that rice plants send defense proteins into the fungal pathogen Rhizoctonia solani via extracellular vesicles (EVs). These vesicles enrich host defense proteins and are taken up by the fungal cells. Reducing EV-mediated host protein transfer leads to increased disease susceptibility. Thus, plants send defense proteins via EVs into fungal pathogens to combat infection, providing a mechanism of protein exchange between plants and pathogens that helps reduce crop disease.
2025-01-06 | PXD048458 | Pride
Project description:To reveal the underlying molecular mechanism of Gif1 action in the control of grain filling and yield improvement, we performed transcriptional profiling of wild type Zhonghua11 and mutant gif1 plants in early filling stage on a global scale using the Affymetrix GeneChip Rice Genome Array Keywords: Filling stage
2007-11-02 | GSE9498 | GEO