genome-wide snp discovery from transcriptome of four common carp strains全基因组snp发现从转录组四个鲤鱼菌株.pdfVIP

Genome-Wide SNP Discovery from Transcriptome of Four Common Carp Strains 1 1 1 1 3 1 1 Jian Xu , Peifeng Ji , Zixia Zhao , Yan Zhang , Jianxin Feng , Jian Wang , Jiongtang Li , 2 1 4 1 1,2 Xiaofeng Zhang , Lan Zhao , Guangzan Liu , Peng Xu *, Xiaowen Sun * 1 Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing, People’s Republic of China, 2 Heilongjiang Fisheries Research Institute, Chinese Academy of Fishery Sciences, Harbin, People’s Republic of China, 3 Henan Academy of Fishery Sciences, Zhengzhou, Henan, People’s Republic of China, 4 National Fish Hatchery of Xingguo Red Carp, Xingguo, Jiangxi, People’s Republic of China Abstract Background: Single nucleotide polymorphisms (SNPs) have been used as genetic marker for genome-wide association studies in many species. Gene-associated SNPs could offer sufficient coverage in trait related research and further more could themselves be causative SNPs for traits. Common carp (Cyprinus carpio) is one of the most important aquaculture species in the world accounting for nearly 14% of freshwater aquaculture production. There are various strains of common carp with different economic traits, however, the genetic mechanism underlying the different traits have not been elucidated yet. In this project, we identified a large number of gene-associated SNPs from four strains of common carp using next-generation sequencing. Results: Transcriptome sequencing of four strains of common carp (mirror carp, purse red carp, Xingguo red carp, Yellow River carp) was performed with Solexa HiSeq2000 platform. De nov