Huayouza 6, a new semi-winter Brassica napus variety with high-yield, good quality, prematurity and extensive adaptability,was derived from the cross between the female parent 8086A and male parent 7-5. Two cDNA-based Arabidopisismicroarray were used to analyze gene differential expression in bud of an elite B.napus hybrid Huayouza6 and its parents,in which there were 83 over-expression transcripts and 331 under-expression transcripts between Huayouza 6 and itsfemale parent 8086A and 94 over-expression transcripts, and 423 under-expression transcripts were demonstrated betweenHuayouza 6 and its male parent 7-5. Further analysis showed that there were significant number of genes responsible forphotosynthesis, and its implication for heterosis was discussed. Northern analysis of phosphoribulokinase coincidedwith its expression pattern derived from hybridization of Arabidopsis cDNA microarray and B. napus mRNA, this systemof heterologous hybridization analysis should be applicable to other close relatives of Arabidopsis thaliana.