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This hampers the understanding of critical molecular events during the postharvest period of fleshy tropical fruits. Therefore, we evaluated label\u2010free quantitation (LFQ) and TMT\u2010SPS\u2010MS3 (TMT) approaches to analyse changes in the protein profile of mango peels during postharvest period. We compared two extraction methods (phenol and chloroform\/methanol) and two peptide fractionation schemes (SCX and HPRP). We accurately identified 3065 proteins, of which, 1492 were differentially accumulated over at 6 days after harvesting (DAH). Both LFQ and TMT approaches share 210 differential proteins including cell wall proteins associated with fruit softening, as well as aroma and flavour\u2010related proteins, which were increased during postharvest period. The phenolic protein extraction and the high\u2010pH reverse\u2010phase peptide fractionation was the most effective pipeline for relative quantification. Nevertheless, the information provided by the other tested strategies was significantly complementary. Besides, LFQ spectra allowed us to track down intact <jats:italic>N<\/jats:italic>\u2010glycopeptides corroborating <jats:italic>N<\/jats:italic>\u2010glycosylations on the surface of a desiccation\u2010related protein. This work represents the largest proteomic comparison of mango peels during postharvest period made so far, shedding light on the molecular foundation of edible fruit during ripening.<\/jats:p>","DOI":"10.1002\/pmic.202300239","type":"journal-article","created":{"date-parts":[[2023,9,8]],"date-time":"2023-09-08T07:13:49Z","timestamp":1694157229000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":8,"title":["Comparing and integrating TMT\u2010SPS\u2010MS3 and label\u2010free quantitative approaches for proteomics scrutiny in recalcitrant Mango (<i>Mangifera indica<\/i> L.) peel tissue during postharvest period"],"prefix":"10.1002","volume":"24","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-0987-5036","authenticated-orcid":false,"given":"Mirna V.","family":"Bautista\u2010Valle","sequence":"first","affiliation":[{"name":"Red de Estudios Moleculares Avanzados, Cl\u00faster Cient\u00edfico y Tecnol\u00f3gico BioMimic\u00ae Instituto de Ecolog\u00eda A.C. (INECOL) Carretera Antigua a Coatepec No. 351  Xalapa Veracruz M\u00e9xico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Carolina","family":"Camacho\u2010Vazquez","sequence":"additional","affiliation":[{"name":"Red de Estudios Moleculares Avanzados, Cl\u00faster Cient\u00edfico y Tecnol\u00f3gico BioMimic\u00ae Instituto de Ecolog\u00eda A.C. (INECOL) Carretera Antigua a Coatepec No. 351  Xalapa Veracruz M\u00e9xico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jos\u00e9 M.","family":"Elizalde\u2010Contreras","sequence":"additional","affiliation":[{"name":"Red de Estudios Moleculares Avanzados, Cl\u00faster Cient\u00edfico y Tecnol\u00f3gico BioMimic\u00ae Instituto de Ecolog\u00eda A.C. 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