Total RNA was extracted from tomato leaves using the RNeasy Plant Mini Kit (Qiagen United States) following the manufacturers protocol. For each sample, one microgram of total RNA was treated with DNA-freeTM DNA Removal Kit (AM1906, Invitrogen) and cDNA was synthesized using the Proto-Script first strand cDNA synthesis kit (New England Biolabs). It was then Illumina sequenced with 150 bp paired-end sequencing.