Highlights
Shading, waterlogging, and their combination reduced leaf photosynthetic assimilation and inhibited lignin biosynthesis.
Under shading, waterlogging, and their combination, stem vascular system was disrupted, reducing the remobilization capacity of dry matter to the ear.
Impact of waterlogging and combined stress occurred at the third leaf growth stage, while shading had the greatest impact at tasseling growth stage.
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