Human activities, such as transportation, agriculture, and aquaculture, have significantly introduced alien species to their non-native habitats, leading to widespread ecological, economic, and social consequences. So far, numerous studies for a better understanding of the invasibility of resident communities in relation to its community characteristics, however, has yielded few generalizations. Therefore, it is timely to disentangle the factors that mediate the relationship between community characteristics and their invasibility. In this study, two paddy soils of plowing layers receiving long-term chemical or organic fertilizers were collected to be used in the reciprocal transplant experiment. Soils were sterilized with gamma ray (50 kGy) irradiation and swap inoculated. Microbial inoculum from organic amended soils was introduced into sterilized soils with either chemical (self-inoculation control, CsCm) or organic (CsOm) groups. Correspondingly, the microbial inoculum from chemically fertilized soils was introduced into sterilized soils with either chemical (OsCm) or organic (self-inoculation control, OsOm) groups. We assessed the relative contribution of sterilized soil (i.e. representing legacy of historical abiotic factor) and microbial inoculum (i.e. representing legacy of historical biotic factor) to the reconstructed microbial community, and explored the factors influencing the abundance (i.e. representing invasion potential of early stage) and time needed to reach detection limit (ttd, i.e. representing the invasion potential of late stage) of non-indigenous bacteria (RFP-tagged Ralstonia solanacearum). Our results showed that historical biotic factors (microbial inoculum) significanty affected (P<0.05) on protozoa abundance and the ratio of gram-positive bacteria to gram-negative bacteria (G^-/G⁺) of the reconstructed microbial community, as well as the abundance of R. solanacearum in soil after fifty-five days inoculation. In contrast, historical abiotic factors (sterilized soil) had a significant effect on microbial respiration, bacterial species and functional diversity in the reconstructed microbial community, and the ttd of R. solanacearum in soil. The abundance of soil R. solanacearum was significantly correlated with protozoa abundance and G^-/G⁺ ratio, while the ttd was significantly correlated with microbial respiration and bacterial species and functional diversity. In conclusion, the relationship between community characteristics and invasibility is regulated simultaneously by the invasion stage and historical factors. More importantly, the current findings not only elucidated the relationship between community composition and non-indigenous species invasion potential but also promoted the resolution of the biodiversity paradox, as well as guide the bio-control of non-indigenous pathogens in the soil ecosystem.