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作物学报 ›› 2014, Vol. 40 ›› Issue (07): 1213-1219.doi: 10.3724/SP.J.1006.2014.01213

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

GenBank数据库中黄麻EST-SSR标记的开发及其通用性评价

张立武**,袁民航**,何雄威,刘星,方平平,林荔辉,陶爱芬,徐建堂,祁建民*   

  1. 福建农林大学作物科学学院 / 作物遗传育种与综合利用教育部重点实验室,福建福州 350002
  • 收稿日期:2013-11-08 修回日期:2014-03-04 出版日期:2014-07-12 网络出版日期:2014-04-08
  • 通讯作者: 祁建民, E-mail: qijm863@163.com, Tel: 0591-87644898
  • 基金资助:

    本研究由高等学校博士学科点专项科研基金(20133515120002), 国家现代农业产业技术体系建设项目(CARS-19-E06), 农业部东南黄红麻实验观测站(农科教发2011)和国家自然科学基金项目(31000734)资助。

Development and Universality Evaluation of EST-SSR Markers in Jute (Corchorus spp.) from GenBank Database

ZHANG Li-Wu**,YUAN Min-Hang**,HE Xiong-Wei,LIU Xing,FANG Ping-Ping,LIN Li-Hui,TAO Ai-Fen,XU Jian-Tang,QI Jian-Min*   

  1. Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops / College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou 350002, China
  • Received:2013-11-08 Revised:2014-03-04 Published:2014-07-12 Published online:2014-04-08
  • Contact: 祁建民, E-mail: qijm863@163.com, Tel: 0591-87644898

摘要:

本研究从GenBank公共数据库中下载黄麻表达序列标签838条,利用SSRPrimer软件对其进行SSR位点查找,利用Primer 3.0软件设计66对SSR引物,通过琼脂糖凝胶研究这些SSR引物的PCR扩增特点,以检测其多态性。结果表明,66对SSR引物在黄麻属6个不同类型材料的扩增中,42 (63.6%)对引物至少在2个材料之间存在多态性。(AT)n重复基元和(GC-)n丰富的三核苷酸重复基元多态性较高,可作为黄麻SSR标记引物设计的首选。黄麻EST-SSR标记开发效率较高,不仅可以丰富黄麻分子标记的数量,而且为剖析黄麻重要性状的遗传机制奠定基础,这对于黄麻的遗传基础研究具有重要应用价值。

关键词: 黄麻, EST, SSR, 标记开发, 多态性

Abstract:

Developing EST-SSR markers from GenBank Database is important in dissecting genetic base in jute. The aim of this study was to analyze SSR distribution in ESTs of jute, develop new EST-derived SSR markers, and validate polymorphisms of EST-SSR markers in jute. All 838 EST sequences of jute were downloaded from GenBank database. Sixty-six pairs of primers were screened by the software SSRPrimer and designed by the software Primer 3.0. The PCR products of these primers were detected by agarose gel electrophoresis. Polymorphism of six diverse accessions in jute was tested. Among these primers, 42 (63.6%) successfully amplified at least one clear and stable fragment from the jute genome and showed polymorphism between at least two diverse accessions. The polymorphic SSRs contained repeat motifs with (AT)n or (GC-)n, which could be regarded as the dominant motifs in jute. The EST-SSR markers in jute could be developed effectively, which can not only enrich the number of molecular markers, but also dissect genetic basis of important traits in jute.

Key words: Jute, EST, SSR, Marker development, Polymorphism

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