RNA-Seq analysis of different tissue-types of developing rice seed

Aleurone layer differentiation completes by 9 DAF, and most of the nutrient filling occurs between 6-21 DAF, (Wu et al., 2016a, 2016b), so we decided to use 10 DAF time point for collection of pericarp, aleurone, embryo and endosperm tissues for RNA-Seq analysis. Since aleurone is mostly single layer, and it’s almost impossible to separately collect pure pericarp and aleurone layers manually, so firstly we developed a method to collect different tissue types of developing grain through LCM and RNA extraction and Sequencing 10 ng of total RNA was used for library preparation and sequencing using Illumina HiSeq2500 platform. 3 biological replicates for each of the tissue type (pericarp, aleurone, embryo, endosperm) were used. For each sample, we obtained in between of 17-32 million reads.