Using The Comparative Genome Method To Study The Pig’s Economic Traits Related InDel

Pig production is closely related with people’s daily lives, thus pig breeding improvement has been an important topic for the breeding researchers. In this study, we use the Chinese local pig breeds and the Western pig breeds as the research object.We download the resequencing data of 66 pigs from the public database, and use bioinformatics methods to comparative analysis the whole genome of the two groups of pigs. We hope that through this study,we can explore the caused reasons for the different economic traits of Chinese and Western pig breeds, and identify InDel that associated with pig economic traits as markers to improve the economic performance of the Chinese local pig breeds.The main results of this study are as follows:1. We identified 2 million InDels at the whole genome level in the two groups of the pigs. The InDel were average distribution in each chromosome;the majority of In Del are 1~3bp insertion or deletion;the number of the nucleotide deletion(DEL) mutations is more than the nucleotide insertion(INS);2. Combined with the analysis of the genome selection signal, we find a number of InDel mutations that may caused by different artificial selection;3. Function analysis found the genes of frame shift mutations involved in embryonic development, growth and body size, and immune system;4. Combined with ENCODE data, we found a number of InDel mutations that located in the important transcriptional regulatory elements of a gene.This study find a group of In Del related with the pig’s economic traits and provide a reference resources for pig breeding.