Updated project metadata. To understand the molecular foundation of the SE induction and development in avocado, we compared by proteomics approach, the embryogenic (EC) and non-embryogenic (NEC) cultures of two avocado varieties. Although Criollo and Hass EC exhibits particularities in the proteome and metabolome profile, in general, we observed a more active phenylpropanoid pathway in EC than NEC. Our proteomic pipeline consisted of a peptide labeled with TMT6plex and synchronous precursor selection (SPS) MS3