转座子在基因组和基因进化中的作用越来越受到关注，转座子插入多态（TIP）分子标记在植物基因组作图、人类起源进化和遗传疾病关联等研究领域中发挥了重要作用。项目组前期在对猪基因组转座子注释中取得了初步成果，但猪基因组上蛋白编码基因内转座子插入位点数量以及这些转座插入对基因活性和表型的影响尚不清楚。本项目拟基于SINE转座子的注释结果，在不同来源的野猪、家猪原始品种、商业化品种、培育品种（系）中开展全基因组水平蛋白编码基因内SINE转座子插入多态位点（SINE-TIP）筛选；获取蛋白编码基因内SINE-TIP位点数据，并进行表型关联分析，鉴定与表型关联性较强的蛋白编码基因内SINE-TIP，并系统研究2-3个SINE-TIP对基因活性的影响及其引起表型变异的分子机制。预期成果将推动猪功能基因组学和分子育种研究进程；预期在国际威权杂志上发表研究论文2-3篇；申请专利2项以上；培养研究生3-5名。

The biological roles of transposon in the evolution of genome and gene have attracted more and more attention, and molecular markers based on the transposon insertion polymorphism (TIP) also play an important role in the studies of plant genome mapping, and the origin and evolution of human and genetic disease association. We have obtained some initial results in the transposon annotation in pig, however, the number of transposon insertion locus within the protein coding genes in pig genome, and the impacts of these insertions on the gene activity and phenotypes remain totally unknown, which are worth for further investigation. Based on the previous annotation results of SINE in our laboratory, this project intend to use the different resources of wild boars, native pig breeds, commercial pig breeds, cultured pig breeds (lines) as the research material to screen TIPs on the whole-genome level, and obtain the data of the SINE-TIPs within protein coding genes. Then the association analysis of these SINE-TIPs with the phenotypic variations were conducted to identify the potentially functional TIPs. Finally, two to three SINE-TIPs will be selected to investigate the molecular mechisims of their effects on the gene activity and phenotypes. This study will facilitate the understanding of the role of transposon in the evolution of pig genome and genes, and promote the studies of pig functional genomics and molecular breeding. Two to three papers are expected to be published in the international reputation journals, at least two patents will be applied, and 3-5 graduates will be trained.