Project description:Gene expression analysis by high-throughtput RNA-sequencing from roots of waterlogged jatropha (Jatropha curcas). Six leaf stage seedlings (~30 d.o.) were subjected to 24 h of soil waterlogging. 4 samples, 2 conditions (24 h nonstress and 24 h waterlogging stress) and 2 independent biological replicates of 2 mRNA pools
Project description:Jatropha is known for its ability to grow in marginal lands and drought prone areas receiving limited amounts of rainfall. Accordingly, gene discovery in Jatropha will be useful for providing a source of genetic information for the improvement of drought tolerance in crops. In this study, a Jatropha oligomicroarray was developed to evaluate the gene expression profile of Jatropha plants during drought stress response and recovery from stress. When the gene expression patterns were compared between those differentially expressed during exposure to drought stress and re-watering, it was possible to identify 333 genes that are involved in the response to dehydration, while 592 genes were found to be significant during recovery, and 375 genes are associated in both dehydration and recovery. Furthermore, representative genes from the three gene categories were compared to those found in other plant species and a basic understanding on how Jatropha copes with drought and its mechanism for survival in dry conditions is discussed. Taken together, the oligomicroarray that we developed in this study is a useful tool for analyzing expression profiles of Jatropha genes to better understand molecular mechanism underlying drought stress responses as well as other aspects of molecular studies in Jatropha. Overall design: All plants were given equal amounts of water every two days. For drought stress treatment, one-month old seedlings were used. Control plants were continuously given equal amounts of water while the drought-treated plants were withheld from watering. After three weeks without watering, leaf tissues were collected from drought-treated plants for isolation of total RNA. Three independent experiments with three biological samples each were simultaneously carried out.
Project description:MicroRNAs or miRNAs are endogenously encoded small RNAs that play a key role in diverse plant biological processes. Jatropha curcas L. has received much attention as a potential oilseed crop for the production of renewable oil. Here, a sRNA library from mature seeds and three mRNA libraries, from three different stages of seed development, were generated by deep sequencing in order to identify and characterize miRNAs and pre-miRNAs of J. curcas. Computation analysis allowed the identification of 180 conserved miRNAs and 41 precursors (pre-miRNAs), as well as 16 novel pre-miRNAs. The predicted miRNA target genes are involved in a broad range of physiological functions, including cellular structure, nuclear function, translation, transport, hormone synthesis, defense and also lipid metabolism. Some of pre-miRNA and miRNA targets have different abundance among the three stages of seed development. A search for sequences that produce siRNA was performed indicating that J. curcas siRNAs play a role in nuclear functions, transport, catalytic process and diseases resistance. This study presents the first large scale identification of J. curcas miRNAs and their targets in mature seeds based on deep sequencing and contributes to understand the function of these miRNAs. microRNA identification in a mature seed library of Jatropha curcas by deep sequencing (Illumina HiSeq2000).