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Background  Water (W) and nitrogen (N) management generally cause regulations in the 2-acetyl-1-pyrroline (2AP) accumulation in fragrant rice; nevertheless, the feasibility of such management strategies at booting stage in improving 2AP accumulation has not been examined in details.    Methods  Field experiments were conducted in the early season (March–July) and repeated in the late season (July–November) in 2013. The treatments were applied urea (90 kg ha − 1 ), calcium super phosphate (90 kg ha − 1 ) and potassium chloride (195 kg ha − 1 ) as basal fertilizer, and urea (65 kg ha − 1 ) at tillering stage. Three N levels i.e., 0 kg N ha − 1  (N1), 30 kg N ha − 1  (N2), and 60 kg N ha − 1  (N3) and three water levels i.e., W1 treatment (well-watered treatment with water layer of 2–4 cm), W2 treatment (soil water potential was − 15 ± 5 kPa), and W3 treatment (soil water potential was − 25 ± 5 kPa) at booting stage was set up for three rice varieties i.e., Nongxiang 18, Yungengyou 14 and Basmati. The grain yield, head milled rice yield, 2AP contents and the biochemical parameters related to 2AP formation were investigated.    Results  Result indicated that W and N dynamics regulated the grain yield, head milled rice yield, and 2AP contents in brown rice across three varieties. The N2 and N3 treatment significantly increased the 2AP contents in brown rice by 9.54% and 11.95%, and 8.88% and 32.54% in the early and the late season, respectively; improved grain yield and head milled rice yield. The W3 treatment improved grain yield, head milled rice yield and 2AP content. Significant W and N interaction effect on 2AP content in brown rice was detected, where the W3 N3 treatment showed the strongest interaction regarding improvement of 2AP contents in brown rice. The 2AP accumulation and its related biochemical parameters and their relationships in different plant tissues at different growth stages under W and N treatments had also been assessed. The 2AP content, P5C content and DAO activity during grain filling periods was highly related to the 2AP content in brown rice.    Conclusion  This study revealed that the 60 kg N ha − 1  coupled with − 25 ± 5 kPa treatment showed the best positive effects on yield and aroma in fragrant rice, suggested that water and nitrogen management at booting stage can improve grain yield and fragrance in fragrant rice. However, further study to evaluate the metabolic and molecular basis of 2AP accumulation in fragrant rice is needed.    Electronic supplementary material  The online version of this article (10.1186/s12284-019-0328-4) contains supplementary material, which is available to authorized users.

Nitrogen application and different water regimes at booting stage improved yield and 2-acetyl-1-pyrroline (2AP) formation in fragrant rice