The composition of archaeal community in CW system remains poorly understood. Thaumarchaeota was found to be the predominant archaeal phylum in CW system treating domestic wastewater, while showed the dominance of Euryarchaeota in CW system treating the mixture of domestic wastewater and reservoir water. He et al. (2016) reported that both Thaumarchaeota and Euryarchaeota were the major archaeal phylum groups in surface water CW system. However,in this study, Euryarchaeota was found to dominate the archaeal community in each surface water VF-CW system. Moreover, different depth-related change pattern of Euryarchaeota proportion was found in these VF-CW systems. Euryarchaeota proportion was found to be influenced by both substrate type and wetland depth.