引用本文:	周小龙,朱靖华,董迎辉,林志华,富凯立,姚韩韩,齐晓艳.泥蚶(Tegillarca granosa)基因组SSR和EST-SSR的开发及比较研究.海洋与湖沼,2013,44(2):467-475.

【打印本页】【HTML】【下载PDF全文】【查看/发表评论】【下载PDF阅读器】【关闭】

过刊浏览高级检索

本文已被：浏览 2924次下载 2081次	码上扫一扫！
分享到：微信更多字体:加大+\|默认\|缩小-
*泥蚶(Tegillarca granosa)基因组SSR和EST-SSR的开发及比较研究*
周小龙^1,2, 朱靖华², 董迎辉², 林志华², 富凯立², 姚韩韩², 齐晓艳³
1.上海海洋大学水产与生命学院;2.浙江万里学院浙江省水产种质资源高效利用技术研究重点实验室;3.宁波大学海洋学院

摘要:

采用SSRHunter软件在泥蚶(Tegillarca granosa)磁珠富集文库和454转录组文库中搜索核心序列长度12bp以上的2—6核苷酸重复序列, 根据富集文库所得基因组SSR侧翼序列设计47对引物, 可成功扩增17对且均为多态性引物, 多态率100%, 平均等位基因数(N_a)、观测杂合度(H_o)、期望杂合度(H_e)、多态性信息含量(PIC)分别为6.8、0.468、0.785、0.733。11344条EST序列中得到1683个SSR位点, 检出率14.83%, 平均每3.85kb出现1个位点。根据部分EST序列设计120对引物, 62对可扩增出目的片段, 其中29个位点具有多态性, 多态率为46.77%, 平均N_a、H_o、H_e、PIC分别为4.2、0.372、0.554、0.500, 均低于基因组SSR。双变量相关性分析的结果表明, 46个多态性SSR位点的核心序列长度与其N_a、H_o、H_e、PIC极显著正相关, Spearman相关系数分别为0.632、0.387、0.657、0.664。

关键词: 泥蚶基因组SSR EST-SSR

DOI：10.11693/hyhz201302032032

分类号:

基金项目:国家“863”计划项目, 2012AA10A410号; 国家现代贝类产业技术体系项目, CARS-48号; 宁波市科技创新团队项目, 2011B82017号; 宁波市科技局农业择优委托项目, 2010C10011号

附件

DEVELOPMENT AND COMPARATIVE STUDY OF GENOMIC-SSR AND EST-SSR IN TEGILLARCA GRANOSA

ZHOU Xiao-Long^1,2, ZHU Jing-Hua², DONG Ying-Hui², LIN Zhi-Hua², FU Kai-Li², YAO Han-Han², QI Xiao-Yan³

1.College of Fisheries and Life Science, Shanghai Ocean University;2.Zhejiang Key Laboratory of Aquatic Germplasm Resources, Zhejiang Wanli University;3.College of Marine Sciences, Ningbo University

Abstract:

47 pairs of primer were designed according to flanking sequence from magnetic bead enrichment library, 17 of them show amplification while 17 (100%) were polymorphic, the average number of alleles (N_a), observed heterozygosity (H_o), expected heterozygosity (H_e) and polymorphism information content (PIC) were 6.8, 0.468, 0.785, 0.733. 1683 SSRs were detected by screening 11344 ESTs, the average density of SSRs was 1 per 3.86kb of EST. Of 120 pairs of primer designed, 62 pairs amplified expected fragment steadily while 29 (46.77%) were polymorphic after tested in 30 individuals of Tegillarca granosa. The average N_a, H_o, H_e, PIC were 4.2, 0.372, 0.554, 0.500. The result of bivariate correlation analysis processed by SPSS showed: there were highly significant positive correlation between the length of SSR core sequence and N_a, H_o, H_e, PIC at the 0.01 level, Spearman correlation coefficient were 0.632, 0.387, 0.657, 0.664, respectively.

Key words: Tegillarca granosa genomic-SSR EST-SSR