The long-term use of chemical fertilizers poses a serious threat to crop productivity and soil quality. Organic fertilizers are used to improve the soil fertility and crop productivity. The application of organic fertilizers improves soil health and plant growth by improving the soil organic matter (SOM), soil structure, aggregate stability, nutrient uptake, water-holding capacity, cation exchange capacity, nutrient use efficiency and microbial activities of soil. The intensity of abiotic stress is continuously increasing, which is a serious threat to crop productivity and global food security. However, organic fertilizers have been reported to improve tolerance against drought, salinity, heat and heavy metal (HM) stresses. The application of organic fertilizer improves the leaf water status, nutrient uptake, nutrient homeostasis, synthesis of chlorophyll, osmolytes, hormones, secondary metabolites, antioxidant activities and gene expression, resulting in improved tolerance against drought, salinity, heat, and heavy metals. In the present review, we have discussed the ability of organic fertilizers to improve soil fertility, crop yield, and the nutrient use efficiency. We have also presented the various mechanisms through which organic fertilizers improve tolerance against drought, salinity, heat, and heavy metals. Therefore, this review will put forth new directions for researchers working on the use of organic materials to improve soil fertility, crop productivity and tolerance against abiotic stresses.

The excessive use of chemical phosphorus (P) fertilizer can lower grain yield and P use efficiency (PUE) by aggravating soil acidity. Substituting organic manure for chemical fertilizer can alleviate the problem, although the long-term effect of organic manure incorporation is unknown. We conceptualized that substituting organic manure for chemical fertilizer may result in higher crop yields and PUE. Therefore, the impact of long-term fertilizer treatments: (i) CK (control), (ii) PK (phosphorus and potassium fertilizer), (iii) NP (nitrogen and P fertilizer), (iv) NK fertilizer, (v) NPK fertilizer, and (vi) NPKM (30% NPK fertilizer plus 70% manure) on rice yield, PUE, P uptake, and apparent balance (APB) was investigated. The results showed that rice yield under different fertilizer treatments ranged from 6.2 to 11.8 t ha⁻¹ (1984–1995), 7.9 to 12.7 t ha⁻¹ (1996–2007), and 6.6 to 12.8 t ha⁻¹ (2008–2018). The rice yield under NPKM was greatly improved compared to other treatments, except with that of NPK (1984–1995). Soil organic carbon (SOC), available P and phosphorus activation coefficient (PAC) under NPKM were significantly higher than other treatments during 1984–2018. Soil pH (1984–2018) was greatly higher under CK and NPKM than under other treatments. Soil total P under PK, NP, NPK, and NPKM was significantly higher than under CK and NK (1984–2018). Compared to other treatments, P uptake was significantly higher under NPKM, except with that of NPK (1984–1995 and 2008–2018). The average PUE (1984–2018) was 10.7, 20.2, 36.1, and 44.2 kg kg⁻¹ under PK, NP, NPK, and NPKM, respectively. The APB under NPKM was significantly lower as compared to PK, NP, and NPK treatments. Therefore, we conclude that in addition to improving soil organic carbon, cations inputs from organic manure can be a factor for the increase in soil pH, making organic manure substitution for chemical fertilizer a more efficient strategy for increasing PUE and crop yield.

Organic fertilizers as partial substitutes for chemical fertilizers improve soil nitrogen (N) retention capacity. However, the relative importance of biotic and abiotic N immobilization at different levels of organic N substitution and the subsequent effects on N utilization in paddy soils are not well elucidated. To address these, a combination of ¹⁵N incubation experiments and pot experiments were conducted to investigate biotic and abiotic N immobilization features and their effects on N fertilizer fate under long-term different fertilization regimes in paddy soils in China. Test soils that had received chemical fertilization (NPK), chemical N was substituted with 30%, 50%, and 70% organic N (70 F + 30 M, 50 F + 50 M, and 30 F + 70 M, respectively), and no fertilization (control) for 36 years. The results revealed that both abiotic and biotic NH₄⁺-N immobilization were enhanced under organic N substitution soils. The highest NH₄⁺-N abiotic and biotic N immobilization was observed under 50 F + 50 M soil, significantly increasing by 195.5% and 51.4%, respectively, compared to the NPK soil. In contrast, only abiotic NO₃⁻-N immobilization increased with rising organic substitution N proportions. N fertilizer utilization efficiency was significantly enhanced in 50 F + 50 M soil (36.7%) compared to the NPK soil (30.3%), which was primarily attributed to the enhanced N pool activity and N immobilization capacity. However, the N fertilizer residue rate was significantly higher in the 30 F + 70 M soil (23.6%) compared to the NPK soil (21.6%), largely attributed to the soil properties improvement. Our results suggest that N immobilization capacity and N fertilizer utilization can be optimized with a 50% organic substitution ratio in our studied soil–crop system.

In this study, we examined the interaction between arsenic (As) and nutrients in paddy soil which received pig manure and chemical fertilizers for 36 years (since 1984). The treatments consisted of: CK (without fertilization); NPK (chemical nitrogen, phosphorus and potassium fertilization); NPK30%M (70% NPK plus 30% manure); NPK50%M (50% NPK plus 50% manure); and NPK70%M (30% NPK plus 70% manure). The combined application of pig manure and chemical fertilizer improved grain yield, soil pH and nutrient levels compared to chemical fertilizer application treatment. In comparison to CK, grain yield increased by 55.9%, 75.0%, 74.9% and 71.9%, respectively under the NPK, NPK30%M, NPK50%M and NPK70%M treatments. Soil As concentration increased by increasing the amount of manure input, and the highest concentration of As was 0.64 mg kg⁻¹ found in the NPK70%M treatment. Increasing the rate of manure application decreased the As bioaccumulation coefficient (BAC) for rice grain. SOC, total N and P showed a positive correlation with the soil-available As concentration and negative correlation with BAC. Furthermore, the partial least square model (PLS) showed that the soil pH and SOC were the most influencing factors on BAC among the different properties of soil, which explained the 75.4% and 17.6% of total variations, respectively. This study concluded that the addition of pig manure together with chemical fertilizers can increase crop production by supplying essential nutrients, but the concentration of As in manure should be monitored to reduce soil and food contamination.

Soil health is a critical factor in sustainable agriculture, particularly in fruit production, where fertilization strategies play a vital role in maintaining the soil quality and enhancing fruit production and quality. This study investigates the effects of different fertilization strategies on soil bacterial communities and honey pomelo (Citrus maxima) properties in Ji’an City, Jiangxi Province, China. Three fertilization treatments were compared: conventional fertilization (CF: botanical organic plus chemical compound fertilizers), organic material fermented fertilization (OF: organic material including duck manure fermented fertilizer plus chemical compound fertilizer), and a special honey pomelo fertilizer (SF: organic material fermented fertilizer only during the whole honey pomelo growing season). Soil samples were collected at two depths (0–20 cm and 20–40 cm) from nine plots (three treatments × three replicates) and analyzed for their soil properties, bacterial community diversity and composition, and fruit characteristics. The results indicate that the OF and SF significantly improved the soil pH, soil organic matter (SOM), and nutrient availability compared to the CF. Additionally, the OF and SF treatments led to a 13.6% and 16.6% increase in fruit weight, respectively, and higher bacterial diversity, although no significant differences were observed in fruit quality parameters such as vitamin C, soluble sugar, and titratable acid. Acidobacteriota, Proteobacteria, Actinobacteria, and Chloroflexi were the dominant bacterial phyla. The soil bacterial composition structures were significantly different among the different fertilization strategies, and were well explained by soil properties such as the pH, SOM, total phosphorus, and available nutrients. Our study suggests that applying fermented organic fertilizers which use duck manure as part of the raw materials, either alone or in combination with chemical compound fertilizers, increases honey pomelo fruit production and improves soil health, contributing to the sustainable development of orchards.

Soil organic nitrogen (SON) positively influences crop productivity, greenhouse gas (GHG) emissions, and sustained nitrogen (N) supply. Herein, we observed the effect of different treatments; no fertilizers (CK), chemical fertilizers (nitrogen, phosphorus, and potassium (NPK)), organic manure, and NPK + OM (NPKOM). This study was performed in a randomized complete block design (RCBD) with three replications. The results indicated that NPKOM treatment significantly decreased the nitrous oxide (N₂O) emissions by 19.97% and 17.47% compared to NPK in both years. This was linked with improved soil nutrient availability, soil organic carbon, soil organic nitrogen (SON) storage (10.06% and 12.38%), SON sequestration (150% and 140%), increased soil particulate (44.11% and 44%), and mineral-associated organic N (26.98% and 26.47%) availability. Furthermore, NPKOM also enhanced nitrate reductase (NR: 130% and 112%), glutamine synthetase (GS: 93% and 88%), sucrose phosphate synthase (SPS: 79% and 98%), SSs (synthetic direction; 57% and 50%), and decreased SSs activity in the decomposition direction (18% and 21%). This, in turn, inhibited the decomposition of sucrase and enhanced starch conversion into carbohydrates, thus leading to an increase in rice yield and a decrease in N₂O emissions. All fertilizations, particularly NPKOM, significantly enhanced grain protein contents by increasing N uptake and its availability. Therefore, NPKOM is an effective practice to enhance rice productivity, and SON sequestration and mitigate the N₂O emissions and subsequent climate change.