Development of DNA microarray for characterization of gene network systems of fish and shellfish

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We conducted expressed sequence tag analysis of yellowtail Seriola quinqueradiata, Japanese flounder Paralichthys olivaceus, red seabream, Pagrus major, kuruma shrimp Marsupenaeus japonicus and black tiger shrimp Penaeus monodon. We were able to successfully develop complementary DNA (cDNA) microarray slides for yellowtail, Japanese flounder, red seabream, kuruma shrimp and black tiger shrimp consisting of 1,034, 1,965, 997, 754, and 1,282 unique cDNAs, respectively. These array slides were used and were proven to be effective in the analysis of gene expression during immunostimulation with lipopolysaccharides (LPS), concanavaline A (conA), poly IC, and peptidoglycan (PG). These slides were also used in the development and evaluation of vaccines designed against fish pathogens. In addition, For Japanese flounder, resistant strains showed 2-fold up-regulation of antigen presentation-related genes following Edwardsiella tarda infection as compared to sensitive strains. Overall, our study shows that transcriptomics such as microarray is an effective biomarker tool in studying host-pathogen relationships and possibly for drug development.