Effects of Organic Farming on Soil Probiotics of Double Rice Cropping System in South China

Organic management practices of double rice cropping can contribute to soil health and crop productivity. However, the impact of organic versus conventional farming practices (CK) on the diversity and functionality of soil probiotics remains poorly understood, despite growing interest in sustainable agricultural methods. To this end, this study evaluated the effects of these farming systems in double rice production on soil microbial communities using metagenomic sequencing and the PROBIO database. Our study accessed the Shannon and Simpson diversity indices of soil probiotics between the two farming systems. Specifically, the Shannon index values were 93.82 for CK and 93.51 for organic farming, showing no statistically significant difference. Similarly, the Simpson index values were 6.18 for CK and 6.46 for organic farming, also demonstrating no significant variance. However, distinct variations in microbial community compositions were observed. Organic farming significantly increased (P < 0.05) the abundance of probiotics that benefit plant growth and nitrogen supply, but reduced those associated with plant nutrient supply and yield. The results show that while organic farming can positively influence certain microbial functions beneficial for sustainable agriculture, it also presents challenges that may affect crop productivity and ecosystem services. These findings suggest that organic farming practices need to be carefully managed to harness the benefits of enhanced microbial functions without compromising crop yields.