The fragrant genotype of super rice contributed to the high yield, superior quality and strong aroma in rice production. The different responses of super rice varieties of fragrant and non-fragrant genotypes to nitrogen fertilization and planting methods are still unclear. A two-year field experiment was conducted to investigate the effects of nitrogen fertilizer and planting methods on the head rice yield, quality, photosynthesis and biomass of fragrant (Yuxiangyouzhan) and non-fragrant (Jiyou615) genotypes of super rice. The results revealed that the head rice yield and grain quality of Yuxiangyouzhan were greater than those of Jiyou615. Increased nitrogen fertilization significantly improved the grain quality of both cultivars, with greater improvement in Jiyou615. Yuxiangyouzhan presented the highest head rice yield, milling quality, and protein content under HT, followed by under MD, and Jiyou615 presented the highest under MT and MD. Both cultivars had higher amylose content and lower alkali under MD. Grain quality differences were attributed to the effects of nitrogen and planting method on photosynthesis and biomass. Nitrogen fertilizer and planting method promoted increased biomass and rates of grain filling through enhanced photosynthesis, which ultimately led to improved head rice yield and milling quality and a harder texture in both cultivars. Additionally, N2 application increased the 2-AP content of YXYZ under MD, which may be related to the effects of antioxidant enzymes on proline content. Considering the cost, we concluded that 220 kg hm−2 of nitrogen fertilizer application under MD improved the quality and aroma of the fragrant genotype of super rice.
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