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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
MetabolomicsMetabolome-based prediction of yield heterosis contributes to the breeding of elite rice
The improvement of breeding efficiencies for heterotic and climate-resilient crops can mitigate the food shortage crisis from overpopulation and climate change. Thus far, diverse molecular markers have been utilized for guiding field phenotypic selections, while the accurate predictions of complex h...
2019-12-10 | MTBLS742 | MetaboLights
TranscriptomicsGene Expression of a Hybrid Rice Strain(LYP9) and Its Parental Cultivars
Based our serial analysis of gene expression (SAGE) data from an elite Chinese super-hybrid rice (LYP9) and its parental cultivars (93-11 and PA64s) in three major tissue types at three different developmental stages, we obtained a much more comprehensive view of genes that related to rice heterosis...
ORGANISM(S): Oryza sativa 
2007-06-07 | E-GEOD-8048 | biostudies-arrayexpress
TranscriptomicsTranscriptome and methylome interactions in rice hybrids
This research reports genome-wide measurements of genetic and epigenetic patterns of inheritance through an integrative analysis of BS-seq, RNA-seq, and siRNA-seq data in two inbred parents of the Nipponbare (NPB) and Indica (93-11) variety of rice and their hybrid offspring. We generated integrativ...
ORGANISM(S): Oryza sativa Indica Group 
2012-07-10 | E-GEOD-38480 | biostudies-arrayexpress
TranscriptomicsIdentification of transcriptome SNPs for assessing allele specific gene expression within a super-hybrid rice Xieyou9308
We identified 9325 reliable single nucleotide polymorphisms (SNPs) distributed throughout the genome, of which nearly 68% were represented in R9308 versus Xieqingzao B by CT and GA SNPs. This may indicate that DNA methylation, a heritable epigenetic mark, exists in the parents and their F1 hybrid. O...
ORGANISM(S): Oryza sativa 
2014-05-16 | E-GEOD-43727 | biostudies-arrayexpress
TranscriptomicsExpression data from rice plants showing hybrid weakness syndrome
Reproductive barriers perform a vital role during speciation1. Hybrid weakness, the poor development of hybrids compared to their parents, hinders gene exchange between different species at the postzygotic stage2,3. The molecular and evolutionary mechanisms of hybrid weakness are poorly understood2...
ORGANISM(S): Oryza sativa 
2014-01-22 | E-GEOD-54243 | biostudies-arrayexpress
UnknownExploring Natural Allelic Variations of the β-Triketone Herbicide Resistance Gene HIS1 for Application in indica Rice and Particularly in Two-Line Hybrid Rice.
Not available
S-EPMC7790941 | biostudies-literature
ProteomicsRice (Oryza sativa) proteome
Here, we present OryzaPG-DB, a rice proteome database based on shotgun proteogenomics, which incorporates the genomic features of experimental shotgun proteomics data. This version of the database was created from the results of 27 nanoLC-MS/MS runs on a hybrid ion trap-orbitrap mass spectrometer, w...
ORGANISM(S): Oryza Sativa 
2016-07-20 | PXD004603 | JPOST Repository
TranscriptomicsDigital gene expression analysis of 5 rice samples
To study the function of chromatin regulators in hybrid gene expression, the histone deacetylase gene OsHDT1 was over-expressed or inactivated by RNAi in an elite rice parent. Digital analysis of gene expression using high throughput sequencing technology revealed several differential gene expressio...
ORGANISM(S): Oryza sativa 
2012-01-01 | E-GEOD-27240 | biostudies-arrayexpress
TranscriptomicsRNase ZS1-mediated UbL40 mRNA decay controls thermo-sensitive genic male sterility in rice.
Male sterility is an important trait in hybrid crop breeding. Thermo-sensitive genic male sterility (TGMS) lines, which are male-sterile at restrictive (high) temperatures but convert to male-fertile at permissive (low) temperatures, have been widely utilized in two-line hybrid rice breeding3. Howev...
ORGANISM(S): Oryza sativa Indica Group 
2014-09-11 | E-GEOD-42314 | biostudies-arrayexpress
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