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The application of organic fertilizers affects soil aggregates, nutrient situations and bacterial communities. However, the direct and indirect effect of different resource-derived organic fertilizers on soil bacterial communities and their links to soil aggregate is poorly understood. Here, we carried out a field experiment for three years to investigate the linkages between soil aggregates and bacterial diversity in a dryland red soil. Six treatments were compared: (no fertilizer (CK), chemical fertilizer (CF), 60% chemical fertilizer + straw at 4500 kg ha−1 (RFS), 60% CF + biochar at 1500 kg ha−1 (RFB), 60% CF + pig manure at 15000 kg ha−1 (RFP), and 60% CF + vermicompost at 15000 kg ha−1 (RFV)). The application of pig manure or vermicompost (animal-derived organic fertilizer) enhanced the soil pH, the content of large macroaggregate (>2 mm), organic matter, available phosphorous and available nitrogen, while decreased the content of small macroaggregate (0.25–2 mm) and microaggregate (<0.25 mm) compared with other treatment. Relative abundances of the dominant bacterial phyla varied across chemical and organic fertilizer treatments, primarily by increasing Bacteroidetes, Gemmatimonadetes, and decreasing Chloroflexi, Acidobacteria and Planctomycetes. Organic fertilizers particularly animal-derived organic fertilizer enhanced the Richness, Shannon and Pielou indices of soil bacteria compared with chemical fertilizer treatment. The regulation of animal-derived organic fertilizers on bacterial community structure (accounting for 53.04% of the variance) was greater than that of plant-derived organic fertilizers (straw and biochar, accounting for 7.69% of the variance). The bacterial alpha diversity showed positive correlation with large macroaggregate, but a negative correlation with small macroaggregate. Further, structural equation models indicated that animal-derived organic fertilizers impacted bacterial diversity positively by regulating resource availability through soil aggregates. However, for the plant-derived organic fertilizers, bacterial diversity was negatively affected by soil aggregates alone, but this was not regulated by fertilization. In addition, animal-derived organic fertilizer also positively affected soil bacteria diversity indirectly via changing soil pH and resource availability. Overall, the different impacts of animal- and plant-derived organic fertilizers on soil bacterial community highlighting the pivotal role of soil habitat architecture and resource chemistry changed by organic fertilizers in the regulation of soil bacteria, which may influence soil quality and agricultural sustainable development. • Animal-derived organic fertilizer (AOF) decreased 0.25–2 and <0.25 mm soil aggregates. • AOF increased >2 mm soil aggregates, pH, organic matter, available P and N. • AOF affect soil bacterial community structure than plant-derived (POF). • AOF affect bacterial community mainly via changing aggregates, pH and resource availability. • Aggregates affect bacterial diversity alone under POF, but not regulated by fertilization. [ABSTRACT FROM AUTHOR]

• Organic input can improve soil quality by the interaction of soil properties. • Use animal-derived organic fertilizer had better soil quality than plant-derived. • AP, AN, GP and AK were selected as a minimum data set for evaluating soil quality. • Information from soil indicators is integrated into a standardization framework. • Appropriate methods of scoring and weighting are determined in the framework. Organic fertilizer applications can increase soil fertility and productivity and reduce chemical fertilizer use. However, few experimental studies have focused on effects of organic fertilizers on soil quality in a field ecosystem. The overarching goal of this study was to develop a soil quality index (SQI) for fertilization management in red soil farmland in China. The specific objectives were to determine 1) appropriate soil quality indicators, 2) a suitable weight assignment method (PCA, principal component analysis or MRA, multiple regression analysis) and 3) the optimal scoring function (standard or linear or non-linear). We analyzed 40 soil physical, chemical, biochemical and biological properties under nine fertilization treatments (CK (no fertilizer), CF (chemical fertilizer), RF (60% chemical fertilizer), CFS (chemical fertilizer + straw), RFS (60% chemical fertilizer + straw), CFB (chemical fertilizer + biochar), RFB (60% chemical fertilizer + biochar), RFP (60% chemical fertilizer + pig manure), RFV (60% chemical fertilizer + vermicompost)) as potential soil quality indicators. Principal component analysis and correlation analysis were applied to determine the indicators responsive to management and for the confirmation of the six SQIs. Available phosphorous, nitrogen, potassium and gram-positive bacteria were chosen as the minimum data set from the total of 40 soil indictors. Management of organic and inorganic fertilizers affected each soil property in different ways, and the index based on the minimum data set, calculated using standard scoring function and weight assignment method of multiple regression analysis, was most accurate and sensitive. Application of a pig manure or vermicompost significantly increased SQI values relative to other treatments, followed by straw or biochar treatments which were higher than a single application of chemical fertilizer. These results indicate that the addition of organic fertilizers will not only improve soil quality, but also enhance rapeseed and sweet potato yield compared to chemical fertilizers. Additionally, the SQI method can provide a practical and quantitative tool for the evaluation of soil quality. [ABSTRACT FROM AUTHOR]