Project description:A major role of NINJA is to repress root jasmonate signalling and allow normal cell elongation. To further characterize the transcriptional changes occurring in the root in the absence of a NINJA-dependent repression mechanism, we conducted a microarray analysis of ninja-1 versus WT roots. Root transcriptome of Col-0 (WT) versus ninja-1, both carrying the JAZ10pro-GUSPlus (JGP) reporter, grown in basal aseptic conditions. Biological replicates: 3 for the WT control and 3 for the ninja-1 mutant.
Project description:A major role of NINJA is to repress root jasmonate signalling and allow normal cell elongation. To further characterize the transcriptional changes occurring in the root in the absence of a NINJA-dependent repression mechanism, we conducted a microarray analysis of ninja-1 versus WT roots.
Project description:Transcriptional profiling of root part comparing wild type with scl3 mutant and SCL3 OE. We used Affymetrix ATH1 microarrays to determine the effect of GRAS transcription factor SCL3 on growth and development of Arabidopsis root system by global transcriptome analysis and to identify new regulators in the regulatory pathway.
Project description:The root apex is an important section of the plant root, involved in environmental sensing and cellular development. Analyzing the gene profile of root apex in diverse environments is important and challenging, especially when the samples are limiting and precious, such as in spaceflight. The feasibility of using tiny root sections for transcriptome analysis was examined in this study.To understand the gene expression profiles of the root apex, Arabidopsis thaliana Col-0 roots were sectioned into Zone-I (0.5 mm, root cap and meristematic zone) and Zone-II (1.5 mm, transition, elongation and growth terminating zone). Gene expression was analyzed using microarray and RNA seq.Both the techniques, arrays and RNA-Seq identified 4180 common genes as differentially expressed (with > two-fold changes) between the zones. In addition, 771 unique genes and 19 novel TARs were identified by RNA-Seq as differentially expressed which were not detected in the arrays. Single root tip zones can be used for full transcriptome analysis; further, the root apex zones are functionally very distinct from each other. RNA-Seq provided novel information about the transcripts compared to the arrays. These data will help optimize transcriptome techniques for dealing with small, rare samples.