Project description:To exlore more circRNAs involved in Arabidopsis thaliana, we deeply sequenced 14 samples including whole plants from four developmental stages (rosette leaves > 1 mm in length; rosette growth complete; 50% of flowers to be produced have opened; first silique shattered), aerial part of plants from four stress treatments (control, drought, salinity and heat), five organs (roots, stems, leaves, flowers and siliques) and a mixed sample from whole plants across the lifespan (cotyledons emergence, rosette leaves﹥1 mm, rosette growth complete, first flower open, flourishing florescence, first silique shattered, senescence). The total RNA was purified by rRNA-depletion and linear RNA removal with RNAseR, and paired-end (PE) sequenced by Illumina HiSeq 2500 (read length, PE125, the mixed sample) and Illumina Hiseq X Ten (read length, PE150, 13 independent samples) platforms. We obtained 181.97 Gb raw data (151.37 Gb from 13 samples and 30.6 Gb from a mixed sample) and identified 5861 circRNAs with expression quantity. We annotated the parent genes of these circRNAs and predicted their target sites of microRNAs.
Project description:Plant drought stress response and resistance are complex biological processes that merit systems-level analyses to dissect drought stress encountered by crops in the field. We have used gene expression profiling of Arabidopsis plants subjected to a controlled, sublethal, moderate drought (mDr) treatment to characterize early and late response to drought. We have also compared these profiles to those from plants treated with soil water deficit (progressive) drought (pDr) to reveal acclimation responses in plants.
Project description:Crop plants are often exposed to the combination of drought and pathogen stress. Transcriptome studies on Arabidopsis thaliana and other plants unveiled activation of shared molecular defense mechanisms between under individual and combined stresses. These shared plant responses are characterized by commonly regulated genes under individual and combined stresses. Based on the previous studies, G-box binding factor 3 (GBF3) is one of the regulatory components of such shared responses. However, the mechanistic understanding on the role of GBF3 under combined drought and pathogen stress is not yet decoded. Using genetic approaches, we demonstrated Atgbf3 mutant plants are more susceptible under individual and combined drought and Pseudomonas syringae pv. tomato DC3000 stresses as compared to the wild-type plants. We further analyzed the global transcriptome of Atgbf3 mutant under combined stress to identify its downstream targets to further validate the role of AtGBF3 in combined stress. We used microarrays to detail the global transcriptome reprogramming during AtGBF3-mediated regulation of combined stress.
