Profiling of plant miRNAs induced by drought stress in the rice plant
Ontology highlight
ABSTRACT:
ORGANISM(S): Oryza sativa
PROVIDER: GSE14246 | GEO | 2011/10/26
SECONDARY ACCESSION(S): PRJNA111173
REPOSITORIES: GEO
Similar Datasets
Project description:Expression profiles were analyzed between drought stress and normal watered control at the tillering and inflorescence stages. 1. We applied microarray analysis to detect drought-stress-regulated miRNAs from tillering to inflorescence-forming stages in rice. 2. Three time courses at the tillering stage and two time courses at the inflorescence-forming stage. Two replicates were carried out in each time course.
2011-10-25 | E-GEOD-14246 | biostudies-arrayexpress
Project description:Rice is highly sensitive to drought, and the effect of drought may vary with the different genotypes and development stages. Genome-wide gene expression profiling was used as the initial point to dissect molecular genetic mechanism of this complex trait and provide valuable information for the improvement of drought tolerance in rice. Affymetrix rice genome array containing 48,564 japonica and 1,260 indica sequences was used to analyze the gene expression pattern of rice exposed to drought stress. The transcriptome from leaf, root, and young panicle at three developmental stages was comparatively analyzed combined with bioinformatics exploring drought stress related cis-elements. In this study, the gene expression patterns across six tissues including leaves and roots at tillering stage and panicle elongation stage, leaves and young panicle at booting stage ( TL: leaves at tillering stage; TR: roots at tillering stage; PL: leaves at panicle elongation stage; PR: roots at panicle elongation stage; BP: young panicle at booting stage; BL: leaves at booting stage) were characterized by using the Affymetrix rice microarray platform based on a drought tolerant rice line derived from IR64.
2010-12-23 | E-GEOD-26280 | biostudies-arrayexpress
Project description:In this study, genome-wide transcriptome profiling was used to understand molecular genetic mechanism of drought tolerance in rice. Illumina High-Seq 2000 platform was used for sequencing RNA from leaf tissue of rice plants exposed to controlled drought stress and well-watered conditions. The differentially expressed genes were used to identify biological process and cis-regulatory elements enriched under drought stress compared to well-watered conditions.
2015-01-16 | GSE65022 | GEO
Project description:adt04-03_fdh_drought - drought stress - What is the role of the mitochondrial formate dehydrogenase in the response to drought? - Wild type and mutant arabidopsis plants were grown in soil for 6 weeks under short days. Each lot of plants is shared into 2 groups, one of which was watered normally (arr) whislt the other half was not watered for a week (sech). Keywords: gene knock out,treated vs untreated comparison
2008-02-13 | GSE10427 | GEO
Project description:Comparative genomics has emerged as a promising means of unravelling the molecular networks underlying complex traits such as drought tolerance.We used Affymetrix microarray to detail the global programme of gene expression underlying in drought and watered condition and identified distinct classes of up-regulated genes during this process.leaf tissue were used for the expression analysis during watered and drought condition with three biological replicates for each case.
2011-01-11 | GSE26522 | GEO
Project description:We sequenced three small-RNA (sRNA) libraries constructed from leaves of sorghum subjected to three different treatments, well-watered (CK), mild drought (DR1) and severe drought (DR2). These findings will be useful for research on drought resistance and provide insights into the mechanisms of drought adaptation and resistance in sorghum.
2023-09-25 | GSE227308 | GEO
Project description:In this study, genome-wide transcriptome profiling was used to understand molecular genetic mechanism of drought tolerance in rice. Illumina High-Seq 2000 platform was used for sequencing RNA from leaf tissue of rice plants exposed to controlled drought stress and well-watered conditions. The differentially expressed genes were used to identify biological process and cis-regulatory elements enriched under drought stress compared to well-watered conditions. Oryza sativa ssp. japonica cv. Nipponbare plants were exposed to controlled drought stress and well-watered conditions at the vegetative stage. Controlled drought (DR) stress was applied on 45 day old plants following gravimetric approach. The soil water content was brought down to 40% field capacity over a period of 3-4 days and plants were maintained at that level for 10 days by weighing the pots daily at a fixed time of the day and replenishing the water lost through evapotranspiration. Another set of plants were maintained at 100% FC as well-watered (WW) condition. Total RNA isolated from leaf tissue was used for RNA-sequencing. Two biological replicates per sample were sequenced. cDNA library was constructed using TruSeq Stranded Total RNA with Ribo-Zero Plant kit (Illumina). Sequencing was carried out on each library to generate 50 bp SE reads using Illumina High-Seq 2000 platform. The transcriptome reads were mapped to the rice reference genome sequence (MSU 7.0) with tophat1.3.1 using the program’s default parameters (http://tophat.cbcb.umd.edu). Mapped RNA-Seq reads were assembled into transcripts by Cufflinks (http://cufflinks.cbcb.umd.edu/) and differentially expressed genes were identified by using Cuffdiff.
2015-01-16 | E-GEOD-65022 | biostudies-arrayexpress
Project description:We report here the RNAseq data generated from a drought experiment using tomato leaves (Solanum lycopersicum), in which three timepoints and two treatments were collected. More specifically, RNAseq was generated from tomato plants prior to drought (T0), during a period of drought (T1) and after a period of recovery from drought (T2). At timepoints 1 and 2 (T1 & T2), a control set of plants that were continuously watered are also included. Furthermore, at each timepoint, each leaf was dissected into two parts, including the vein and intervein. The samples are therefore named as Tissue/Timepoint/Treatment, and include VT0W (vein, T0, watered), VT1W (vein, T1, watered), VT1D (vein, T1, drought), VT2D, VT2W and IVT0W (intervein, T0, Watered), IVT1D, IVT1W, IVT2D, IVT2W. Note that VT2D and IVT2D, while named "drought", were actually recovered from drought.
2020-10-31 | GSE156402 | GEO
Project description:The young panicles 2 cm length were used for expression analysis in well watered control and drought stressed treatment. The panicle samples from biological replicates of six rice varieties were obtained in three independent experiments. The expression profiles were generated using Affymetrix rice genome arrays.
2017-06-14 | GSE83378 | GEO
Project description:Comparative genomics has emerged as a promising means of unravelling the molecular networks underlying complex traits such as drought tolerance.We used Affymetrix microarray to detail the global programme of gene expression underlying in drought and watered condition and identified distinct classes of up-regulated genes during this process.leaf tissue were used for the expression analysis during watered and drought condition with three biological replicates for each case. Here we assess the genotype-dependent component of the drought-induced transcriptome response in two contrasting cotton (Gossypium spp) genotypes differing in drought tolerance. Leaf tissue were used during drought and watered condtion for RNA extraction and hybridization on Affymetrix microarrays. We sought to obtain differential expression pattern during drought and wtered condition.
2011-01-11 | E-GEOD-26522 | biostudies-arrayexpress