Plant growth-promoting rhizobacteria (PGPR) can improve crop yields, nutrient use efficiency, plant tolerance to stressors, and confer benefits to future generations of crops grown in the same soil. Unlocking the potential of microbial communities in the rhizosphere and endosphere is therefore of great interest for sustainable agriculture advancements. Before plant microbiomes can be engineered to confer desirable phenotypic effects on their plant hosts, a deeper understanding of the interacting factors influencing rhizosphere community structure and function is needed. Dealing with this complexity is becoming more feasible using computational approaches. In this review, we discuss recent advances at the intersection of experimental and computational strategies for the investigation of plant–microbiome interactions and the engineering of desirable soil microbiomes.

植物促生根际细菌（PGPR）可以提高作物产量、养分利用效率、植物对压力的耐受性，并为在同一土壤中生长的后代作物带来好处。因此，释放根际和内圈微生物群落的潜力对于可持续农业进步具有重大意义。在对植物微生物组进行改造以赋予其植物宿主理想的表型效应之前，需要更深入地了解影响根际群落结构和功能的相互作用因素。使用计算方法处理这种复杂性变得更加可行。在这篇综述中，我们讨论了用于研究植物-微生物组相互作用和理想土壤微生物组工程的实验和计算策略交叉的最新进展。