In this study, synteny analyses among common wheat, Brachypodium, rice, sorghum and maize genomes were performed based on the collinearity of the corresponding orthologous genes (best hits of CDSs) (Table S4; Figures S3 and S4). Features of the wheat-grass genome relationships revealed in this study included a high frequency of breakdown in microcollinearity throughout the genomes compared to the previous RFLP-based maps22, 31, 33–36. Both large and especially small synteny blocks across wheat chromosomes and grass family chromosomes were observed in this study. These features might be attributed to the higher number of markers used in this study. More recently, Russo et al.32 conducted collinearity analysis across durum wheat, Brachypodium, and rice based on a high-density durum wheat genetic map derived from the Wheat90K SNP assay. Both large and especially small synteny blocks across wheat chromosomes and grass family chromosomes were also observed in that study. Based on a high-density genetic map, we documented a wheat genome perspective of homologous sorghum and maize genome locations based on comparative sequence analysis. A wheat genome view of homologous gramineous plant genome locations based on comparative sequence analysis would considerably improve the predictability and efficiency of information transfer, and would be benefit evolutionary studies.