RNA-seq of tomato: Product X
RNA was extracted using the RNeasy Plant Mini kit (QIAGEN, Cat. No. 74904) according to the manufacturer's protocol. RNA integrity was assessed using the Agilent 2100 Bioanalyzer System.  Approximately 1 g of RNA was used for 3' mRNA-seq library preparation using the QuantSeq 3' mRNA-seq Library Prep Kit FWD (Lexogen). To minimize lane effects, samples were multiplexed using the Multiplexing Sample Preparation Oligo Kit (Illumina). Size selection was performed on a 2% agarose gel (Low Range Ultra Agarose, Biorad 161-3107). The denatured library was diluted to a final concentration of 6 pM and loaded into a flow cell (Illumina). After cluster generation, the multiplexed library was sequenced on an Illumina NextSeq 500 System (75 cycles, single-end, high output).