SNPs discovery and genotyping using restriction-site-associated DNA sequencing(RAD-seq)in Chickens

• 作 者: Z.X.Zhai[1]W.J.Zhao[1]C.He[2]K.X.Yang[3]L.L.Tang[3]S.Y.Liu[1]Y.Zhang[4]Q.Z.Huang[3]H.Meng[1]
• 机 构: Department of Animal Science,School of Agriculture and Biology,Shanghai Jiao Tong University,Shangha
• 出 处: 第七届中国畜牧科技论坛
• 发表日期: 2016年期

　　Single nucleotide polymorphisms(SNPs)are essential to understanding of population genetic variation and diversity.Here we performed restriction-site-associated DNA sequencing(RAD-seq)on 72 individuals from 13 Chinese indigenous and 3 introduced chicken breeds.Total of 620 million reads were obtained using Illumina Hiseq2000 sequencer.We identified average 75,587 SNPs in each individual.Further filtering strictly validated 28,895 SNPs candidates for all populations.Comparing with NCBI dbSNP(chicken_9031),15,404 SNPs were new-found.With this study,we practiced RAD-seq on birds for the first time.It is implicating the remarkable effectiveness and potential applications on genetic analysis and breeding technique as the whole-genome selection in chicken and other agricultural animals.