In this research, we used RNA-sequencing technology to detect genome-wide differentially expressed genes in spleen and gill of Vibrio harveyi -infected Takifugu rubripes.This high-throughput sequencing could help us to understand new mechanisms of action of V. harveyi induced aquaculture fish disease. Overall design: Takifugu rubripes spleen and gill mRNA profiles of control and Vibrio harveyi treatment groups