Reducing the size of clinoptilolite accentuates its structural attributes, notably mesoporosity and the silica−aluminum ratio, which enhanced its capabilities as an efficient adsorbent and modifier. This research aims to utilize the augmented small−size effect of clinoptilolite to develop a high−performance nano−clinoptilolite based nitrogen (N) fertilizer, to substitute an equivalent amount of urea. To this end, a two−year field experiment was conducted using a single−factor randomized complete block design, involving five different nano−clinoptilolite based N fertilizer mixed with urea (ZN) ratios: control treatment (100% Urea, CK); 20% Z & 80% Urea (Z2N8); 30% Z & 70% Urea (Z3N7); 40% Z & 60% Urea (Z4N6); 50% Z & 50% Urea (Z5N5). This study explored the effects of ZN on ammonia volatilization (AV), N runoff loss, N accumulation, N balance, yield, and ecological benefits in paddy fields. The results showed that Z2N8, Z3N7, Z4N6, and Z5N5 reduced the total AV losses by 8.57%, 20.52%, 30.20%, and 37.13% (two−year average), and reduced runoff losses by 23.29%, 29.93%, 39.66%, and 43.76%, respectively. Additionally, Z2N8, Z3N7, Z4N6, and Z5N5 increased whole−plant N accumulation by 24.32%, 16.84%, 9.00%, 4.85%, and raised rice yield by 15.28%, 10.28%, 6.99%, 5.05%, respectively. This result indicates that ZN can enhance N utilization, although the effectiveness diminishes with an increased application ratio. Furthermore, Z2N8, Z3N7, and Z4N6 lowered N surpluses by 48.77%, 25.84%, and 3.17%, respectively, while Z5N5 resulted in an increase in N surplus by 9.61% relative to the control. Compared to CK, nano−clinoptilolite based N fertilizer replacing 20% of urea (Z2N8) increased income by 14.75%, reduced environmental damage cost by 8.77%, and ultimately boosted net economic benefits by 5.33% and net economic and ecological benefits by 5.75%. In conclusion, Z2N8 can be contemplated as a compound fertilizer to be applied to farmland to enhance both economic and ecological benefits.
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