To further clarify the genetic basis and phylogenetic relationships of different waxy maize inbred lines and to predict heterosis models, this study selected 36 waxy maize backbone inbred lines and geno typed by 1 K SNP based on multiplex PCR technology. The results showed that 36 waxy maize were divided into 4 groups（A, B, C, D）.By establishing a simulated parent model based on Kennian 1 and other varieties, better hybrid models such as WX8 × Nuo2, WX19 × Nuo1 are estimated to provide clear direction for waxy maize breeding practice.