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TranscriptomicsGenome-wide Gene Expression Profiling of Salinity Responsiveness in Rice
Abiotic stresses such as salinity are very important factors limiting rice growth and productivity around the world. Affymetrix rice genome array containing 48,564 japonica and 1,260 indica sequences was used to analyze the gene expression pattern of rice responsive to salinity stress, try to elucid...
ORGANISM(S): Oryza sativa 
2015-11-02 | E-GEOD-58603 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of Oryza sativa subtypes Cultivar Nagina-22 (N22) and IR64 subtypes under normal and drougth conditions.
High quality RNA was extracted from the whole seedlings (Combined root and leaf samples) using TRI Reagent (Ambion, Inc. USA) and pooled from 12 independent stressed and non-stressed plant samples separately, and treated with DNase-I (QIAGEN GmbH, Germany). Subsequently, RNA cleanup was carried out...
ORGANISM(S): Oryza sativa Indica group 
2010-10-09 | E-MEXP-2401 | biostudies-arrayexpress
TranscriptomicsGlobal expression profiling of low temperature induced genes in chilling tolerant japonica rice
Three week old seedlings of rice cultivar Jumli Marshi (spp. Japonica) was exposed to cold (+4C) temperatures for varying time periods. Tissue samples were collected in replicates. Microarray data analysis was then performed on the extracted totalRNA from the samples.
ORGANISM(S): Oryza sativa japonica 
2013-05-01 | E-MEXP-3718 | biostudies-arrayexpress
TranscriptomicsGene expression profile of response to auxin at 3 h after treatment in rice root tips: IR64 vs Dro1-NIL
Gene expression profile of response to auxin at 3 h after treatment in rice root tips: IR64 (loss-of-function of DRO1 type) vs Near-isogenic line homozygous for the Kinandang Patong allele of DRO1 in an IR64 genetic background (Dro1-NIL; gain-of-function of DRO1 type) We used two rice varieties, IR6...
ORGANISM(S): Oryza sativa 
2013-05-07 | E-GEOD-46255 | biostudies-arrayexpress
TranscriptomicsGene expression analysis of rice seedling under potassium deprivation
Potassium is one of the essential macronutrients required for plant growth and development. It plays a major role in different physiological processes like cell elongation, stomatal movement, turgor regulation, osmotic adjustment, and signal transduction by acting as a major osmolyte and component o...
ORGANISM(S): Oryza sativa Indica Group 
2013-09-14 | E-GEOD-44250 | biostudies-arrayexpress
GenomicsSingle-base resolution DNA methylation maps of rice cultivars under control and stress conditions
In this study, we aim to generate genome-scale DNA methylation profiles at single-base resolution in different rice cultivars (IR64, Nagina 22 and Pokkali) under control and stress conditions. Using high-throughput whole genome bisulfite Sequencing, we generated DNA methylation maps covering the vas...
ORGANISM(S): Oryza sativa 
2015-12-31 | E-GEOD-60288 | biostudies-arrayexpress
TranscriptomicsExpression data from IR64 rice transformed with 35S::OsPSTOL1 gene
OsPSTOL1 confers phosphorus (P)-deficiency tolerance in rice through enhancement of early root growth. The larger root surface area at early stage provides the plants an advantage for nutrient uptake. We conducted microarrays to determine the genes which are constitutively regulated by OsPSTOL1, ind...
ORGANISM(S): Oryza sativa 
2012-09-01 | E-GEOD-38871 | biostudies-arrayexpress
TranscriptomicsTranscriptome profile for roots of the rice plants which showed favorable morpho-physiological adaptation when subjected to severe drought stress
To understand how OsNAM12.1 over-expression influences the target genes within qDTY12.1 and across the genome to affect root growth, the root transcriptome of Vandana, 481-B, IR64-Tr-E2, and IR64-WT were compared under control and drought conditions. Drought induced gene expression was studied in th...
ORGANISM(S): Oryza sativa 
2016-02-25 | E-GEOD-78504 | biostudies-arrayexpress
GenomicsOryza sativa Indica Group strain:IR64
de novo genome assembly of Oryza sativa ssp. indica cv. IR64
PRJDB8810 | ENA
TranscriptomicsStress responsive gene expression in rice cultivars
In this study, we aim to present a global view of transcriptome dynamics in different rice cultivars (IR64, Nagina 22 and Pokkali) under control and stress conditions. More than 50 million high quality reads were obtained for each tissue sample using Illumina platform. Reference-based assembly was p...
ORGANISM(S): Oryza sativa 
2015-12-31 | E-GEOD-60287 | biostudies-arrayexpress
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