Expression analysis by RNAseq of roots and shoots of the pho1 mutant expressing the EXS domain of PHO1
ABSTRACT: Expression of the EXS domain of PHO1 in the Arabidopsis thaliana pho1 mutant leads to improved shoot growth in comparison to the parental pho1 mutant. We have used RNAseq to study the gene expression profile in the roots and shoots of the pho1 mutant, two independent transgenic lines of pho1 expressing the EXS domain of PHO1 (lines EXS32 and EXS34) as well as a pho1 mutant transformed with the full length PHO1 gene (complemented line). Overall design: Plants were grown for 25 days in pots, roots and shoots were harvested and RNA was extracted
The response of shoots to phosphate (Pi) deficiency implicates long-distance communication between roots and shoots, but the participating components are poorly understood. We have studied the topology of the Arabidopsis (Arabidopsis thaliana) PHOSPHATE1 (PHO1) Pi exporter and defined the functions of its different domains in Pi homeostasis and signaling. The results indicate that the amino and carboxyl termini of PHO1 are both oriented toward the cytosol and that the protein spans the membrane ...[more]
Project description:Regulation of genes in shoots and roots and Arabidopsis in response to Zn-deficiency in wild-type and hma2 hma4 mutants plants We used microarrays to determine co-regulated genes in the roots of Zn deficient wild-type plants with hma2 hma4 plants from control conditions. These co-regulated genes are candidates for regulation by a systemic signal Overall design: Shoots and roots of wild-type plants grown in control and Zn-deficient conditions were harvested at 7 weeks of age, 3 weeks after transfer to -Zn or control media. Shoot and roots of wild-type and hma2 hma4 plants were harvested after 21 days of growth
Project description:Arabidopsis Col-0 seedlings grown in liquid culture to growth stage 1.0 were treated with 5 µM Benzyladenine and incubated for the indicated time points. Roots and shoots of the seedlings were then harvested separately by taking each individual seedling with a soft forceps at the hypocotyl, dipping it into liquid nitrogen and breaking off the root at the inner wall of a collection tube that was swimming in liquid nitrogen. The shoot part was then striped from the forceps at the edge of another collection tubes.
Project description:Gene expression profiles of drought-stressed roots and shoots was performed at 0, 1, 3, 5, 7 and 9 days were analyzed using the custom microarray Agilent-034592. Overall design: Seeds of Arabidopsis thaliana (Col-0 ecotype) were grown on MS medium at 22°C under 16-h-light/8-h-dark for 9 days. Plantlets were then transferred to ceramics granular soil (size 2.5L, Sakatanotane, Japan) and grown for 8 days at 22°C. The drought treatment was then commenced by removing excess water from the trays and ceasing any subsequent watering. Roots and shoots were harvested separately at 0, 1, 3, 5, 7 and 9 days after the onset of drought treatment.
Project description:CURLY LEAF (CLF), the major histone methyltransferase of Polycomb Repressive Complex 2 (PRC2), modifies trimethylation of histone H3 lysine 27 (H3K27me3) and mediates dynamical chromatin repression in Arabidopsis. Here we used strand specific RNA-sequencing to profile Arabidopsis transcriptomes obtained from roots, shoots, flowers and siliques of Col-0 and clf-28 plants. Our analysis identified a large number of CLF-regulatedd transcripts in Arabidopsis. Transcriptome profiling in roots, shoots, inflorescences and siliques of WT and clf-28 plants with 3 biological replicates.
Project description:Rice seedlings at 3-leaf stage were used for expression analysis in control and salt stressed (incloudling salt treatment for 3, 24hrs and recovery from cold stress for 24hrs) samples. Samples of shoots and roots from biological replicates of both genotypes were generated and the expression profiles were determined using Phalanx Rice OneArray＠ v1. Control and treated biological replicates of salt-tolerant cultivar TNG67 (japonica) and salt-sensitive cultivar TCN1 (indica) were analyzed
Project description:Rice seedlings at 3-leaf stage were used for expression analysis in control and cold stressed (incloudling cold treatment for 3, 24hrs and recovery from cold stress for 24hrs) samples. Samples of shoots and roots from biological replicates of both genotypes were generated and the expression profiles were determined using Phalanx Rice OneArray＠ v1. Control and treated biological replicates of cold-tolerant cultivar TNG67 (japonica) and cold-sensitive cultivar TCN1 (indica) were analyzed
Project description:This experiment contains the subset of data corresponding to sorghum RNA-Seq data from experiment E-GEOD-50464 (http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-50464/), which goal is to examine the transcriptome of various Sorghum bicolor (BTx623) tissues: flowers, vegetative and floral meristems, embryos, roots and shoots. Thus, we expanded the existing transcriptome atlas for sorghum by conducting RNA-Seq analysis on meristematic tissues, florets, and embryos, and these data sets have been used to improve on the existing community structural annotations.