Mixed plantations of Eucalyptus with native tree species can effectively improve forest ecosystem services. However, the long-term effects and ratios of Eucalyptus-native tree species mixture on plant diversity in different plant layer, multiple ecosystem services, multiservice and the underlying mechanisms remain unclear. To fill these gaps, a four-level intercropping gradient of Eucalyptus urophylla planted with eight native tree species (NS) was set up (i.e., 20%NS, 30%NS, 40%NS, 50%NS), monitored and compared with a monoculture E. urophylla plantation (EU) and a randomly mixed plantation (98%NS) in southern China. We calculated the multiple ecosystem services of the plantation and the multidimensional diversity (taxonomic diversity (TD), functional diversity (FD), and phylogenetic diversity (PD)) of different plant layers. The results showed that the long-term (13–15a) and short-term (1a) plantation communities were significantly different in multidimensional diversity in all three vertical plant layers. In the long-term, intercropping with more than 20% native trees significantly increased the multidimensional diversity in the tree layer, but not the shrub and herb layers, compared to the EU. Intercropping with 50% native trees significantly promoted biodiversity conservation service, ecosystem multiservice and synergistic relationships among ecosystem services over a decade. Both initial mixing ratio and naturally restored multidimensional diversity in shrub and herb layers influenced tree layer's multidimensional diversity, contributing to long-term multiple ecosystem services of mixed Eucalyptus-native tree species plantations. Our results highlighted the risk of applying short-term based diversity results in long-term strategy making for E. urophylla plantation, quantitatively explored the high explanatory power of plant functional and phylogenetic diversities on multiservice, and expanded understanding of the mechanisms of the triad, biodiversity-ecosystem service-ecosystem stability. To practice, intercropping 50% native trees was recommend for long-term optimizing multiservice restoration, including but not limited to biodiversity conservation, and the syngeneic development among ecosystem services of Eucalyptus plantations.
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