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Quantifying the similarities and differences in atmospheric nitrogen (N) deposition between different ecosystems is important to develop effective measures to reduce air pollution and maintain biodiversity. Here we show that the constitution of N deposition differed significantly between a grassland and a desert ecosystem in Northwestern China. Flux of bulk (wet plus part of dry deposition) and dry (gaseous NH 3 and NO 2) deposition were continuously monitored from 2018 to 2020. The grassland and desert sites had similar amount of total N deposition, being 7.29 and 6.33 kg N ha−1 yr−1, respectively. However, N deposition at the grassland was dominated by the bulk deposition (4.44 kg N ha−1 yr−1, 61% of the total N deposition), whereas that at the desert was dominated by dry deposition (4.20 kg N ha−1 yr−1, 66% of total deposition). The desert had greater ambient concentrations of NH 3 (3.66 μg N m−3) and NO 2 (1.52 μg N m−3) than the grassland (2.73 μg NH 3 –N m−3 and 0.72 μg NO 2 –N m−3). The amount of reduced N deposition (NH 4 + and NH 3) was around 3 times of that of oxidized N deposition (NO 3 − and NO 2) in both ecosystems. The N deposition rates in both ecosystems have exceeded the critical load for the fragile ecosystems (5–10 kg N ha−1 yr−1), highlighting the importance of reducing N emission sources that are related with anthropogenic disturbance. [Display omitted] • The boundary of Tarim Basin and Tibet Plateau has relatively low N deposition. • Bulk and dry deposition dominated in grassland and desert, respectively. • The reduced/oxidized N ratio in N deposition was close to 3 in both ecosystems. • N deposition exceeded the minimum critical load value for sensitive ecosystems. [ABSTRACT FROM AUTHOR]