Editing-overexpression coupling system synchronizes photosynthetic enhancement, yield optimization, and abiotic stress tolerance in rice

Source-sink coordination serves as the foundation for improving crop yield. Current research primarily focuses on individual factors, such as increasing the source or expanding the sink, which often leads to disrupted source-sink balance, causing trade-offs among photosynthesis, yield, and stress response. To address these limitations, we present an integrated synthetic biological framework that synergistically enhances photosynthetic efficiency (source capacity), sink optimization, and abiotic stress tolerance. We developed an editing-overexpression coupling (EOC) vector system enabling simultaneous overexpression of four photosynthesis-enhancing genes ( Cyt c 6 , PsbA , FBPase , OsMGT3 ), knockout of three yield-limiting genes (GS3, Gn1a, OsAAP5), and self-excision of selection markers, gene-editing modules, and fragment deletion cassettes. Field evaluations of CFMP-gga transgenic lines revealed significant physiological improvements, including 13%–17% increase in photosynthetic rates, improved chlorophyll fluorescence parameters, and increased stomatal conductance. These enhancements translated into remarkable agronomic gains, including 18.7%–22.3% higher grain yield, 23.1%–26.1% increased biomass, and improved panicle architecture (increased grain size and grain number per panicle). The engineered lines maintained superior thermotolerance (under 42 °C stress) and alkali tolerance (at pH 10) compared to wild-type controls. This study provides a strategy for enhancing crop yield by demonstrating that coordinated multi-gene regulation of source-sink dynamics, coupled with stress resilience engineering, achieves concurrent improvements.