Comparative proteomic analysis of longissimus dorsi muscle in immuno- and surgically castrated male pigs

•Cytoskeleton (desmin and vimentin) were upregulated in IC.•Several HSPs were differentially expressed involving some signaling pathways.•Laminins were highly expressed in SC.•Redox proteins were upregulated in SC. We compared proteomic profiles of male pig muscles after active immunization against gonadotropin releasing hormone (GnRH) and surgical castration. Longissimus dorsi samples were collected from immunocastration (IC) and surgical castration (SC) groups (n=15 each). Muscle proteins were extracted and then identified by data-independent label-free nano LC–MS/MS. A total of 610 proteins were identified, 50 of which were differentially expressed (P