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TranscriptomicsSmall RNAs as important regulators for the hybrid vigour of super-hybrid rice
Heterosis is an important biological phenomenon; however, the role of small RNA (sRNA) in heterosis of hybrid rice remains poorly described. Here, we performed sRNA profiling of F1 super-hybrid rice LYP9 and its parents using high-throughput sequencing technology, and identified 355 distinct mature ...
ORGANISM(S): Oryza sativa 
2014-08-17 | E-GEOD-51468 | biostudies-arrayexpress
TranscriptomicsTranscriptome of rice seedling and callus based on RNA-seq method
To support our research of epigenomics in rice genome, we conducted massively parallel pyrosequencing of mRNAs (RNA-seq) using rice seedling and callus tissues. We obtained a total of 40.1 M reads from seedling and 29.6 M reads from callus.The RNA-seq data derived from the replicates showed high cor...
ORGANISM(S): Oryza sativa Japonica Group 
2011-11-09 | E-GEOD-33265 | biostudies-arrayexpress
TranscriptomicsTranscriptomic shifts in rice roots in response to Cr (VI) stress
Detailed analysis of genome-wide transcriptome profiling in rice root is reported here, following Cr-plant interaction. Such studies are important for the identification of genes responsible for tolerance, accumulation and defense response in plants with respect to Cr stress. Rice root metabolome an...
ORGANISM(S): Oryza sativa Indica Group 
2010-11-11 | E-GEOD-25206 | biostudies-arrayexpress
ProteomicsRice-xoo interaction phosphoproteome LC-MSMS
A comprehensive quantitative phosphoproteome analysis of rice in response to bacterial blight at 0h and 24h after xoo infection
ORGANISM(S): Oryza sativa (Rice) 
2015-06-29 | PXD002222 | Pride
Lc-msms Phosphoproteome Xoo Rice 
TranscriptomicsNext Generation Sequencing Facilitates Small RNA Mediated Rice Resistance to Xoo
Purpose: The goal of this study is to identify small non-conding RNAs which are involved in rice resistance to Xoo. Methods: Rice leaves were inoculated with the Xoo strain PXO61 at the four-leaf to five-leaf stage by the leaf-clipping method. Control rice plants were inoculated with water (mock ino...
ORGANISM(S): Oryza sativa Japonica Group 
2016-02-25 | E-GEOD-69242 | biostudies-arrayexpress
GenomicsChIP-seq to identify the positions of three histone modifications in the rice genome
Gene expression is controlled by the complex interaction of transcription factors binding to promoters and other regulatory DNA elements. One common characteristic of the genomic regions associated with regulatory proteins is a pronounced sensitivity to DNase I digestion. We generated genome-wide ...
ORGANISM(S): Oryza sativa 
2011-11-09 | E-GEOD-26733 | biostudies-arrayexpress
GenomicsRice endosperm: mRNA profiling and H3K27me3 occupancy
This SuperSeries is composed of the following subset Series: GSE26840: Express data from rice endosperm GSE27048: Genome-wide maps of chromatin state in rice endosperm Refer to individual Series
ORGANISM(S): Oryza sativa 
2011-12-06 | E-GEOD-27064 | biostudies-arrayexpress
GenomicsGenome-wide maps of chromatin state in rice endosperm
We report the application of single-molecule-based sequencing technology for high-throughput profiling of histone H3 trimethylation in rice endosperm. By obtaining about four hundred million bases of sequence from rice chromatin immunoprecipitated DNA, we generated genome-wide chromatin-state maps o...
ORGANISM(S): Oryza sativa 
2011-12-06 | E-GEOD-27048 | biostudies-arrayexpress
TranscriptomicsThe Polycomb Group Gene EMF2B is required for meristem determinacy and organ specification in rice flowers.
The Polycomb Repressive Complex 2 (PRC2) represses the transcriptional activity of target genes through trimethylation of Lysine 27 of Histone H3. The functions of the plant PRC2 have been chiefly described in Arabidopsis but specific PRC2 functions in other plant species, especially the cereals, ar...
ORGANISM(S): Oryza sativa Japonica Group 
2014-10-31 | E-GEOD-49633 | biostudies-arrayexpress
TranscriptomicsRice gene expression in irrigated and rainfed fields during two seasons
To identify the concurrent effects of multiple environmental factors on gene expression under natural climatic fluctuations in rice, we examined global gene expression patterns in two fields typical of the main modes of rice cultivation, over two seasons, each comprising 15 time-points in three diff...
ORGANISM(S): Oryza sativa 
2015-10-01 | E-GEOD-73609 | biostudies-arrayexpress
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