Fig. 3

Syntenic comparison of homologous JAZ gene pairs in maize. a The synteny dotplot of self-self Z. mays genome comparison using SyMAP. Each dot denoted a pair of putative homologous genes that undergone a shared recent WGD event, and syntenic gene pairs were plotted with color based on their Ks values shown in b. b Histogram of Ks values of syntenic gene pairs. The dotplot and Ks histogram were created using CoGe. Three significant syntenic pairs were evident: ZmJAZ1, ZmJAZ3–1, and ZmJAZ2 pairs located on the huge syntenic block shared by chromosome 2 and 7, and chromosome 2 and 10, respectively. Smaller syntenic blocks were observed from c chromosome 1 and 9 for ZmJAZ4–1 pairs and d chromosome 7 and 2 for ZmJAZ5–1 pairs generated using PGDD. Syntenic gene pairs were labeled with color lines