| Summary: | 碩士 === 國立臺灣海洋大學 === 資訊工程學系 === 104 === Aquaculture is one of the most important resources for human protein foods. Due to increasing shortage of natural resources worldwide, selection of superior strain for cultivation, shortening cultivation period, avoidance of cultivation environment deterioration, and reduction of possibilities of infectious disease transmission have become crucial factors for establishing the aquaculture industry in Taiwan. This study integrated bioinformatics and next generation sequencing technologies to establish a simple sequence repeat (SSR) marker selection database for Taiwan Nile tilapias. Through genomic sequencing and assembling, molecular marker discovery, and on-line searching database construction, the developed system could facilitate fish farmers and biologists in performing marker-assisted-selection effectively and effectively. In Taiwan, Nile tilapia is a traditional and important aqua-farming fish. To identify excellent breeding strains, characteristics of growth rate, feed conversion rate, and disease resistance traits should be primarily considered. Hence, two examples of finding genetic biomarkers with respect to the topics of skeletal development system and immune system related genes and their corresponding SSRs for Nile tilapias were illustrated in this study. In addition, an on-line comparison web system for both Taiwan and Ensembl Nile tilapia genomes was designed for discovering SSR variations. Based on GO term features, a set of associated genes and corresponding SSR biomarkers could be identified and compared, and the novel discovered markers could facilitate biologists in performing marker-assisted-selection and breeding for enhancing Taiwan’s aquafarming industry.
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