Process RNA expression count data from Groen et al.: Evolutionary systems biology reveals patterns of rice adaptation to drought-prone agro-ecosystems

We assessed transcriptome variation in populations of 6 accessions of rice, Oryza sativa, which represented the circus-aus, indica and japonica sub-populations. During the 2017 Philippines dry season the accessions were planted in four biological replicates in identical randomized complete block-design layouts in two fields: a continuously wet paddy, and a field where plants were exposed to intermittent drought in the vegetative and reproductive stages. We measured transcript levels in leaf blades and crown root tips of 50-day-old plants at 32 days after seedling transplant, and 14 days after withholding water in the dry field, using a liquid automation-based 3’ mRNA-seq quantification approach. Samples were multiplexed in a 96-sample library. Raw sequencing data are available at the SRA in BioProject accession number PRJNA564338. A key to the raw sequencing data in this BioProject can be found in the metadata of the processed RNA expression count data here.