Organic fertilizer is an effective substitute for mineral fertilizer that improves crop yield and is environmentally friendly. However, the effects of substitution often vary due to complicated interactions among the organic fertilizer substitution rate (Rs), total nutrient supply, and type of cropping system used. We performed a meta-analysis of 133 maize studies, conducted worldwide, to assess maize yield and environmental performance with substitution of mineral fertilizer with organic fertilizer. At an equivalent nitrogen (N) rate, substituting mineral fertilizer with organic fertilizer increased maize yield by 4.22%, reduced NH₃ volatilization by 64.8%, reduced N leaching and runoff by 26.9%, and increased CO₂ emissions by 26.8%; however, it had no significant effect on N₂O or CH₄ emissions. Moreover, substitution with organic fertilizer increased the soil organic carbon sequestration rate by 925 kg C ha⁻¹ yr⁻¹ and decreased the global warming potential by 116 kg CO₂ eq ha⁻¹ compared with mineral fertilizer treatment. The net global warming potential after organic fertilizer substitution was −3507 kg CO₂ eq ha⁻¹, indicating a net carbon sink. Furthermore, the effect of organic fertilizer substitution varied with the fertilization rate, Rs, and treatment duration. Maize yield and nitrogen use efficiency tended to increase with increasing N application rate following substitution of mineral fertilizer with organic fertilizer. Full substitution reduced N losses more than partial substitution. Further analysis revealed that the yield-optimal Rs for organic N in maize production was 40–60%. Moreover, maize yield and nitrogen use efficiency were further increased after long-term (≥ 3 years) combined use of organic and mineral fertilizers. These findings suggest that rational use of organic and mineral fertilizers improves maize productivity, increases soil organic carbon sequestration, and reduces N and C losses.

Agriculture in China, which is dominated by millions of smallholders, consumes 30% of global nitrogen (N) fertilizers and results in a high surplus and vast spatial variability of N. Identifying the N-management practices of smallholder farmers is critical to pursuing sustainable agricultural productivity. However, at the national scale, N budgets and spatial distribution based on first-hand data from smallholder farmers are not well characterized. Here, using data collected from a national survey involving 7.3 million farmers from 2005 to 2014, we quantified N budgets, evaluated their spatial variation, and revealed “hotspots” of low N removal and high N surplus for wheat, maize, and rice systems at the county level. The N surplus for cereal crops was 122–140 kg N ha⁻¹, which is equivalent to an annual N surplus of 11.3 megaton (Mt). Chemical N was the most important contributor to the N surplus, while farmers used manure N less than 10% of the total N input. N budgets exhibited vast spatial variation at the county level, and the hotspots contributed to 56% of the total N surplus in China. Targeted efforts for eliminating hotspots could increase N removal by 13–21%, increase N use efficiency to 0.55–0.70, and significantly reduce the N surplus for all counties and crops, by 42%. Based on farmer survey data, our results provide updated estimates of N budgets and highlight hotspots of N surplus for cereal crop systems in China. They provide a benchmark for the development of new agricultural N management policies and technologies in the country.

Soil acid–base status fundamentally regulates biogeochemical cycling and agroecosystem resilience by controlling nutrient solubility, cation exchange, and redox equilibria. However, the long-term evolution of soil pH and its spatial divergence under intensive agricultural expansion remain poorly quantified. Herein, we integrate three nationwide soil surveys (1980, 2012, 2018) encompassing over 190,000 cropland observations into a harmonized 1 km dataset to reconstruct four decades of soil pH change across China. National mean soil pH declined from 7.1 in 1980 to 6.7 in 2012 and 6.6 in 2018, revealing a sustained acidification trend. Nearly one quarter of neutral soils (pH 6.5–7.5) have shifted into acidic classes (<6.5) since 1980, reflecting widespread depletion of soil buffering capacity under intensive fertilization, high rainfall, and carbonate exhaustion. By integrating current pH conditions with standardized pH change rate, we delineate nine bidirectional soil pH risk zones that capture contrasting acidification and alkalization processes along climatic and edaphic gradients. Acidification-prone zones dominate humid southern croplands, whereas alkalization risk prevails in arid northern regions. Our results provide nationally consistent, grid-level evidence of soil acid–base evolution across nearly four decades, offering a quantitative foundation for region-specific soil management to sustain productivity and mitigate environmental risks.