Ultraviolet and darkness regulation of medicinal metabolites in Mahonia bealei revealed by proteomics and metabolomics

We initially developed targeted methods for PRM to validate the observed differences (using Tier 3 analyses) on a Q-Exactive plus Orbitrap mass spectrometer (Thermo Scientific, San Jose, CA, USA). Fifth-four proteins from differentially abundance proteins were selected for targeted analyses because of their biological activities and concentration levels of interest. Up to three target peptides with at least one unique peptide per protein were included by matching to the spectral library. These are skyline format file for all the PRM analyses and the raw data from MS. And the pdresult files were used for generation of spectral library.