水生生物学报2018，Vol.42Issue(6)：1186-1193,8.DOI:10.7541/2018.145
从公共数据库中利用数据挖掘的方法开发15条黄金鲈EST-SSR标记
DEVELOPMENT OF FIFTEEN EST-SSR MARKERS IN YELLOW PERCH PERCA FLAVESCENS BY DATA MINING FROM PUBLIC EST SEQUENCES
摘要
Abstract
The yellow perch,Percaflavescens,is an economically significant freshwater fish species in the Midwest of the United States.Type Ⅰ markers are useful for comparative mapping and other genetic analyses,but limited quantities in yellow perch.In the present study,EST containing microsatellite sequences were identified and characterized for yellow perch by data mining from updated public EST databases.Out of 21968 EST sequences of yellow perch,about 14.4％ of ESTs contain repeat motifs of various types and length.CA repeat was the most abundant dinucleotides.Out of the 62 EST-SSRs for which PCR primers were designed,15 loci showed polymorphic in a yellow perch population with the alleles per locus ranging from 4 to 19 (average 9).The observed (Ho) and expected (HE) heterozygosity of these EST-SSRs were 0.103-0.929 and 0.116-0.934,respectively.Four EST-SSR loci significantly deviated from the HardyWeinberg equilibrium (HWE) expectation,and the remaining 11 loci were in HWE.These new EST-SSR markers should provide sufficient polymorphism for population genetic studies and genomic mapping of yellow perch.关键词
黄金鲈/EST/微卫星/EST-SSR/基因注释Key words
Yellow perch/Expressed sequence tag (EST)/Microsatellites/EST-SSRs/Gene ontology (GO)分类
生物科学引用本文复制引用
王丹,姚红,王卫民,邹桂伟,王汉平..从公共数据库中利用数据挖掘的方法开发15条黄金鲈EST-SSR标记[J].水生生物学报,2018,42(6):1186-1193,8.基金项目
Supported by National Institute of Food and Agriculture,U.S.Department of Agriculture (2009-38879-19835)] （2009-38879-19835）
National Nonprofit Institute Research Grant of Freshwater Fisheries Research Center (2015JBFM39) （2015JBFM39）
Central Public-interest Scientific Institution Basal Research Fund,CAFS (2017JBF0201) （2017JBF0201）
