Abstract: The liver transcriptome analysis of parent and offspring of Coreius guichenoti was conducted by Illumina Hiseq^TM 2000 sequencing platform. The results showed that 80688 Unigenes were obtained by splicing and de novo assembly. The length of Unigene was mainly 401—600 bp, accounting for 43.56% of the total Unigene. All Unigenes were annotated based on different public databases: Nr, GO, COG, and KEGG. 2701 differentially expressed genes between parents and offspring were found, of which 1240 were upregulated and 1461 were downregulated. The cluster heatmap of differentially expressed genes pattern showed that the expression of different duplicate genes in the same sample was similar. The enrichment of KEGG metabolic pathway of differentially expressed genes were analyzed and 37 significant enrichment metabolic pathways were constricted (P<0.05). The results showed that propionate metabolism, pyruvate metabolism, carbon fixation pathways in prokaryotes, glyoxylate and dicarboxylate metabolism, fatty acid metabolism and terpenoid backbone biosynthesis seemed to be the obvious core metabolic pathways, which were significantly upregulated in offspring C. guichenoti. The results would enrich the genomic data of C. guichenoti, which was the first report to compare the metabolic differences between parents and offspring at the molecular level, and also explained why C. guichenoti offspring were not susceptible to disease in the same circulating water system.