GenBank数据库中黄麻EST-SSR标记的开发及其通用性评价

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。

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

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.