Mangrove wetlands can reduce heavy metal pollution by trapping heavy metals. In this study, the concentration,transport and bioaccumulation of Cr, Cd, Cu, Zn and Pb in the sediments and different parts of Aegiceras ciculatum at four different sites in the Qinzhou Bay in southwest China were investigated. The results showed that although the potential ecological risk of all five heavy metals was slight, the concentration of Cr was at a moderate pollution level due to the emissions of industries and aquaculture waste water. Core sediment records indicated that the concentrations of heavy metals at the depth of 0–20 cm were relatively high, showing an increasing trend of heavy metals over the past 20–30 years. Cr, Cu, Pb and Cd accumulated mainly in the roots of A. ciculatum, while Zn accumulated mainly in the stems. Aegiceras ciculatum showed the strongest transport capacity for Zn and Cu and the strongest bioaccumulation ability for Cd. Compared with other mangrove communities, A. ciculatum can be chosen as a restoration species in tropical and subtropical coastal zones polluted by Zn, Cu and Cd.