biostudies-literatureLiu Qthe National Natural Science Foundation of China912-925https://www.ebi.ac.uk/biostudies/studies/S-EPMC12290285biostudies-literatureUnknown66(6)Physalis pubescens, as a staple horticultural crop of Physalis in China, has shortcomings of a single variety, low yield, and unique fruit shape and color. In an attempt to overcome these disadvantages, we employed gene editing technology in the main cultivar "Jinhuang 1" ("JH1") of P. pubescens to reprogram the related traits. Six orthologous genes related to tomato domestication and improvement, which include fruit shape gene OVATE, inflorescence branching gene COMPOUND INFLORESCENCE (S), fruit color gene LYCOPENE BETA CYCLASE (LCY1), and fruit size regulating genes CLAVATA3 (CLV3), FRUIT WEIGHT2.2 (FW2.2), and EXCESSIVE NUMBER OF FLORAL ORGANS (ENO), were identified and edited in "JH1." Phenotypic variations observed in ovate, s, and clv3 of P. pubescens were mainly consistent with thosPlant & cell physiologyEditing multiple genes in Physalis pubescens provides valuable lessons and implications for creating new germplasm and varieties of Physalis crops.PMC1229028532221001, 31930007, and 31525003He CWu LLiu PLiu QfalseEditing multiple genes in Physalis pubescens provides valuable lessons and implications for creating new germplasm and varieties of Physalis crops.Physalis pubescens, as a staple horticultural crop of Physalis in China, has shortcomings of a single variety, low yield, and unique fruit shape and color. In an attempt to overcome these disadvantages, we employed gene editing technology in the main cultivar "Jinhuang 1" ("JH1") of P. pubescens to reprogram the related traits. Six orthologous genes related to tomato domestication and improvement, which include fruit shape gene OVATE, inflorescence branching gene COMPOUND INFLORESCENCE (S), fruit color gene LYCOPENE BETA CYCLASE (LCY1), and fruit size regulating genes CLAVATA3 (CLV3), FRUIT WEIGHT2.2 (FW2.2), and EXCESSIVE NUMBER OF FLORAL ORGANS (ENO), were identified and edited in "JH1." Phenotypic variations observed in ovate, s, and clv3 of P. pubescens were mainly consistent with thos2025-01-01T00:00:00Z2025 Jul2026-04-08T00:40:30.378Z2026-04-07T19:45:41.758ZS-EPMC122902854017674310.1093/pcp/pcaf036