Integrating multiomics driven bioengineering and regenerative approaches to improve soil health and productivity in...

Multiomics-based bioengineering and regeneration approaches are increasingly recognized as beneficial for restoring soil health and improving sustainable agriculture under climate change. Soil-related abiotic stresses, particularly soil acidity and salinity, continue to be significant production constraints for soybean (Glycine max L.) and agroecosystem resilience, particularly in Indonesia's problematic soils. This study comprehensively reviews integrating multiomics, including genomic, transcriptomic, and rhizomicrobiome-based engineering with regenerative practice to enhance soil biological function, nutrient use efficiencies, and climate-resilient soybean production. A PRISMA-guided systematic review with bibliometric analysis of 2015-2025 publications included 986 articles from ScienceDirect and Scopus, of which 15 were eligible. The research unveils and advocates emerging trends in rhizobiome engineering, multiomics integration, regenerative soil management, and bioameliorant innovations to mitigate abiotic stresses while collaboratively restoring soil functionality. It is concluded that, under acidic and saline soil conditions, the soybean physiological performance for increased stress tolerance was significantly improved by microbial inoculants, nutrient amendments, and CRISPR/Cas9-mediated gene knockout techniques, resulting in an average yield increase of 15%-45% and grain yield exceeding 3.2 t ha^-1. Additionally, soil pH was raised by 0.5-1.0 units, soil organic carbon increased by 40%, soil biota abundance increased by 50%, and nitrogen-use efficiency increased by 30% through regenerative practices. Despite these developments, long-term field validation, multiomics data integration, and policy support for widespread adoption remain significant obstacles. This review emphasizes climate-smart soybean cultivation on degraded soils by integrating multiomics-based bioengineering with regenerative management approaches. Nevertheless, the limited number of existing studies underscores the need for broader large-scale validation and enhanced data integration.