“…Microorganisms inhabiting the soil of temperate alley-cropping agroforestry systems have been studied using a variety of methods ranging from microscopy techniques to modern high-throughput sequencing approaches. Among the most frequently applied methods are chloroform fumigation extraction (CFE) for the determination of the microbial biomass [ 27 , 35 , 36 , 39 , 40 , 41 , 42 , 43 , 44 , 45 ] and the measurement of potential enzyme activities [ 36 , 39 , 46 , 47 , 48 , 49 , 50 , 51 ]. Other popular methods to characterize soil microbial communities in temperate agroforestry systems include substrate-induced respiration [ 27 , 39 , 46 , 52 ] and phospholipid fatty acids (PLFA) analysis [ 27 , 40 , 50 , 53 ].…”