Fig. 3

Targeted tomato trichome gland cell (TGC) proteomics by large-scale selected reaction monitoring (SRM) quantification. a Experimental workflow of tomato TGC proteomics using SRM. TGCs of type VI trichomes from tomato were recovered from different organs (the green fruits, leaves, and calyx). TGCs were collected directly into urea lysis buffer, and then subjected to an in-solution digestion treatment with trypsin/Lys-C. The peptide ions of interest were selectively monitored by the liquid chromatography (LC)-SRM assay and the peak intensities of the detected ions of the different organs were compared using Skyline software. b SRM profiles of the targeted TGC proteome in the different organs. Five biological replicates were used for each organ type. In our SRM system, 221 proteins were quantified. c Principal component analysis was performed based on the peak intensity of the peptides identified in the five replicates