Experimental design and replication. The experiments were conducted three times (top three red-outlined boxes). For each experiment, three hydroponic buckets were treated with control (NaOH and H2O) or treatment (ABA and PEG) (middle grey box; colored diamond). After 27 hrs of treatment, 10 plants from each bucket were harvested, separated into roots and shoots, and RNA extracted (middle grey box; brown and green arrows). RNA samples from each bucket were combined in equimolar amounts and 5 μg of combined RNA used to create the Illumina RNA-Seq cDNA (bottom box; colored bins). Each flowcell (8 lanes) contained 4 root and 4 shoot samples, each having been treated with ABA, NaOH, PEG, or H2O for 27 hrs. The order of the samples on the flowcell was assigned by random draw for each Illumina run.