Development of 101 Novel EST-Derived Single Nucleotide Polymorphism Markers for Zhikong Scallop (Chlamys farreri)  

作　　者：LI Jiqin BAO Zhenmin LI Ling WANG Xiaojian WANG Shi HU Xiaoli 

机构地区：[1]Key Laboratory of Marine Genetics and Breeding (MGB),Chinese Ministry of Education,College of Marine Life Sciences,Ocean University of China

出　　处：《Journal of Ocean University of China》2013年第3期403-412,共10页中国海洋大学学报（英文版）

基　　金：the National Natural Science Foundation of China(No.31130054);the National Basic Research Program of China(973 Program,2010CB126406 and 2010CB126402);the National High-Tech R&D Program(863 Program,2012AA10A402 and 2012AA10A405);the National Key Technology R&D Program(2011BAD13B06);the Earmarked Fund for Modern Agro-Industry Technology Research

摘　　要：Zhikong scallop(Chlamys farreri) is an important maricultured species in China.Many researches on this species,such as population genetics and QTL fine-mapping,need a large number of molecular markers.In this study,based on the expressed sequence tags(EST),a total of 300 putative single nucleotide polymorphisms(SNPs) were selected and validated using high resolution melting(HRM) technology with unlabeled probe.Of them,101(33.7%) were found to be polymorphic in 48 individuals from 4 populations.Further evaluation with 48 individuals from Qingdao population showed that all the polymorphic loci had two alleles with the minor allele frequency ranged from 0.046 to 0.500.The observed and expected heterozygosities ranged from 0.000 to 0.925 and from 0.089 to 0.505,respectively.Fifteen loci deviated significantly from Hardy-Weinberg equilibrium and significant linkage disequilibrate was detected in one pair of markers.BLASTx gave significant hits for 72 of the 101 polymorphic SNP-containing ESTs.Thirty four polymorphic SNP loci were predicted to be non-synonymous substitutions as they caused either the change of codons(33 SNPs) or pretermination of translation(1 SNP).The markers developed can be used for the population studies and genetic improvement on Zhikong scallop.Zhikong scallop （Chlamys farreri） is an important maricultured species in China. Many researches on this species, such as population genetics and QTL fine-mapping, need a large number of molecular markers. In this study, based on the ex- pressed sequence tags （EST）, a total of 300 putative single nucleotide polymorphisms （SNPs） were selected and validated using high resolution melting （HRM） technology with unlabeled probe. Of them, 101 （33.7%） were found to be polymorphic in 48 indi- viduals from 4 populations. Further evaluation with 48 individuals from Qingdao population showed that all the polymorphic loci had two alleles with the minor allele frequency ranged from 0.046 to 0.500. The observed and expected heterozygosities ranged from 0.000 to 0.925 and from 0.089 to 0.505, respectively. Fifteen loci deviated significantly from Hardy-Weinberg equilibrium and significant linkage disequilibrate was detected in one pair of markers. BLASTx gave significant hits for 72 of the 101 poly- morphic SNP- containing ESTs. Thirty four polymorphic SNP loci were predicted to be non-synonymous substitutions as they caused either the change of codons （33 SNPs） or pretermination of translation （1 SNP）. The markers developed can be used for the population studies and genetic improvement on Zhikong scallop.

关 键 词：Zhikong scallop Chlamysfarreri SNP EST HRM 

分 类 号：Q953[生物学—动物学] S917.4[农业科学—水产科学]