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Key message The transcriptomic, phenotypic and metabolomic analysis of transgenic plants overexpressing GhMPK31 in upland cotton revealed the regulation of H 2 O 2 burst and the synthesis of defensive metabolites by GhMPK31 . Abstract Mitogen-activated protein kinases (MAPKs) are a crucial class of protein kinases, which play an essential role in various biological processes in plants. Upland cotton ( G. hirsutum ) is the most...