Project description:au10-10_froid - defenses mechanism in response to cold stress - Role of PI4 kinase and Long-chain bases kinases in response to cold stress - Plantlets of wild type and mutant were grown vitro for 14 days in a growth chamber (80% humidity, 80 micro Enstein without photoperiod). The 15th day, plantlets were transferred at 4°C or 12°C during 4 hours (80 micro Enstein) for the cold stress. 14 dye-swap - treated vs untreated comparison
Project description:au10-10_froid - defenses mechanism in response to cold stress - Role of PI4 kinase and Long-chain bases kinases in response to cold stress - Plantlets of wild type and mutant were grown vitro for 14 days in a growth chamber (80% humidity, 80 micro Enstein without photoperiod). The 15th day, plantlets were transferred at 4°C or 12°C during 4 hours (80 micro Enstein) for the cold stress.
Project description:We analysed the effect of a short 24 hours cold exposure (priming-stimulus) on gene regulation upon the first two hours of a second cold (4°C) stimulus (cold-triggering) and upon the first two hours of excess light exposure (800 µmol photons m-2 s-1, light triggering). The first and the second stress treatment was seperated by 5 days long lag-phase, which is long enough to reset most of the primary stress response. Several early light and early cold responsive genes showed however a altered transcript abundance in plants, which received five days befor the cold priming stimulus. Espicially JA responsive genes showed a common priming regulation within the cold and light exposure.
Project description:Alternative splicing plays a major role in expanding the potential informational content of eukaryotic genomes. It is an important post-transcriptional regulatory mechanism that can increase protein diversity and affect mRNA stability. Cold stress, which adversely affects plants growth and development, regulates the transcription and splicing of plants splicing factors. This affects the pre-mRNA processing of many genes. To identify cold regulated alternative splicing we applied Affymetrix Arabidopsis tiling arrays to survey the transcriptome under cold treatment conditions. Two-week old Arabidopsis seedlings grown on agar were subjected to 24 hours of cold (4°C) treatment under long day conditions. Control and cold-treated plants were harvested at the same time to ensure that observed differences would not be due to circadian clock effects on transcripts. Total RNA from four biological repeats were used for microarray hybridization.
Project description:Stress priming is a critical adaptive mechanism that enables plants to enhance responses to recurring environmental stresses. While transcriptomic changes associated with cold stress priming have been reported, the underlying epigenetic mechanisms remain largely unknown. In this study, we investigated transcriptomic and DNA methylation dynamics in cold-primed and non-primed Arabidopsis thaliana plants. Cold stress induces distinct gene expression patterns between primed and non-primed plants, accompanied by DNA methylation changes across all cytosine contexts in both protein-coding genes and transposable elements (TEs). Notably, CHH methylation within gene bodies and TEs is markedly reduced in cold-primed plants, suggesting a role for DNA hypomethylation in establishing cold stress memory. This hypomethylation correlates with decreased expression of the CMT2 DNA methyltransferase and components of the RNA-directed DNA methylation (RdDM) pathway, indicating a passive demethylation process during cold treatment. Furthermore, DNA methylation mutants exhibit enhanced cold stress memory, highlighting the role of methylation in preventing spurious gene activation and maintaining priming specificity. Particularly, met1, deficient in CG methylation, shows reduced methylation at the CBF gene cluster, correlating with their overexpression and enhanced activation of downstream cold-responsive genes. Our findings show that DNA methylation modulates cold stress memory by shaping chromatin and ensuring transcriptional precision.
Project description:RNA-Seq was performed to study the change of gene expression before and after cold treatment in Brachypodium. Different change patterns were identified. We have provided a complete view of transcriptome under cold stress condition, which will deepen our understanding of gene expression regulation in cold stress response as well as cold stress response mechanism for monocot plants.
Project description:PARE (parallel analysis of RNA ends) was performed to study the change of uncapped mRNAs before and after cold treatment in Brachypodium. Different change patterns were identified. We have provided a complete view of uncapped transcriptome under cold stress condition, which will deepen our understanding of gene expression regulation in cold stress response as well as cold stress response mechanism for monocot plants.
