Label‐free deep shotgun proteomics reveals protein dynamics during tomato fruit tissues development

• DOI: 10.1111/tpj.13490
• Publication Date: 2017-01-23T12:17:32Z
• Authors: Jedrzej Szymanski; Yishai Levin; Alon Savidor; Dario Breitel; Louise Chappell‐Maor; Uwe Heinig; Nadine Töpfer; Asaph Aharoni
• Keywords: Proteome; Shotgun proteomics; Shotgun; Phenylpropanoid; Metabolic pathway

Summary Current innovations in mass‐spectrometry‐based technologies allow deep coverage of protein expression. Despite its immense value and contrast to transcriptomics, only a handful studies crop plants engaged with global proteome assays. Here, we present large‐scale shotgun proteomics profiling tomato fruit across two key tissues five developmental stages. A total 7738 individual groups were identified reliably measured at least one the analyzed or The depth our assay enabled identification 61 differentially expressed transcription factors, including renowned ripening‐related regulators elements ethylene signaling. Significantly, proteins involved 83% all predicted enzymatic reactions metabolic network. Hence, representing almost complete set major pathways identified, cytosolic plastidic isoprenoid phenylpropanoid pathways. Furthermore, data allowed us discern between isoforms according expression patterns, which is most significant light weak transcript‐protein correspondence. Finally, visualization changes abundance associated particular process provided unique view skin flesh developing fruit. This study adds new dimension existing genomic, transcriptomic metabolomic resources. It therefore likely promote translational post‐translational research additional species, presently focused on transcription.