Continuous potato monoculture induces soil degradation and yield reduction. While crop rotation alleviates continuous cropping obstacles, its microbial regulatory mechanisms underlying soil quality improvement remain poorly understood. Through field trials in arid and semi-arid regions of Northwest China, we systematically analyzed the effects of five rotation systems (potato - broad bean rotation, PB; potato - maize rotation, PM; potato - fallow, PF; potato - oil flax rotation, PO; and potato - quinoa rotation, PQ) on soil microbial community structure and soil quality, along with tuber yield, with continuous potato cropping (PP) as the control. A Soil Quality Index (SQI) was developed through principal component analysis by integrating multiple soil physicochemical indicators. All rotations significantly increased SQI (21.5 %-37.7 %) and tuber yields by 2.1 %-16.2 % compared to PP, with PO achieving the peak yield enhancement (16.2 %). Random forest modeling identified available phosphorus (AP), potassium (AK), and soil organic matter (SOM) as primary SQI influencing factors. Microbial analysis revealed rotations enriched Acidobacteriota (6.1 %-38.5 %) while reducing Anthophyta abundance (8.8 %-154.2 %). Weighted gene co-expression network analysis demonstrated bacterial networks exhibited higher node complexity but lower connectivity than fungal networks. Key bacterial family (1.1 % of taxa) including Pyrinomonadaceae (positively correlated with TK/AP, r < -0.50, P = 0.01) and Chitinophagaceae (yield-associated, r = 0.52, P = 0.03) were identified by Zi-Pi analysis as microbial indicators of soil fertility and productivity. The superior performance of the potato-oil flax rotation is attributed to enhanced SOM accumulation, improved nutrient availability (AP, AK), and the selective stimulation of functional bacterial groups promoting nutrient cycling. This work advances understanding of rotation-mediated soil remediation by systematically characterizing microbial interaction networks, providing actionable insights for sustainable potato cultivation in arid and semi-arid regions.
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