Abstract:[Background] Rotation was known as one of the effective methods in continuous cropping obstacle prevention. Banana-pineapple rotation has been confirmed to be a very effective method in banana Fusarium wilt disease control. [Objective] In order to evaluate the effectiveness of prevention to banana Fusarium wilt disease induced by different pineapple varieties, five treatments in banana orchard soil with high incidence of disease were set as follows: fallow (CK), banana planted (B), “bali pineapple” planted (B_BP), “gold pineapple” planted (B_GP) and “tai nong 17 pineapple” planted (B_PP). The amount of cultivated Fusarium oxysporum, total fungi, bacteria, actinobacteria and soil properties were investigated to analyze the characteristics of chemical properties and microbial distribution in different treatments. [Methods] Pot experiment and culturable microorganisms’ analysis were used to study the changes of soil properties and culturable microorganisms of different pineapple varieties planted in banana orchard with high disease. [Results] Compared with fallow (CK), amount of Fusarium oxysporum in treatment B was significantly increased, while in B_GP and B_PP treatments, it was significantly reduced. Besides, the number of culturable bacteria and actinobacteria were significantly increased in B_GP and B_PP treatments. Content of available phosphorus, numbers of bacteria and actinobacteria were negatively correlated with culturable Fusarium oxysporum, respectively. while soil pH and the number of culturable fungi were positively correlated with culturable Fusarium oxysporum. Results of principal co-ordinate analysis (PCoA) and multiple regression tree (MRT) showed that soil fertility quality of B_GP and B_PP treatments were similar, while, they were far different from the other three treatments. [Conclusion] Our finding provides evidence that planting “tai nong 17” and “gold pineapple” were more effective than “bali pineapple” in control of banana Fusarium wilt for their high-efficiency ability to improve the soil properties and the culturable microorganisms.