基于NCBI数据库的油棕EST-SSR标记的开发与应用

Development and utilization of SSR markers of oil palm according to NCBI database

应用NCBI网站上释放的41 977条油棕EST序列,从中挖掘SSR位点3 946个,根据27个SSR位点的侧翼序列设计引物,并对18份油棕DNA样品进行扩增,扩增结果显示10个标记具有多态性。根据这些标记信息,对这18份油棕资源进行主成分分析,18份油棕资源被分成两个遗传群体,一个为文昌高隆湾和文昌椰子研究所的油棕资源,另一个群体为10份引自马来西亚的油棕资源。这些研究显示,开发的标记可用于油棕资源遗传多样性评估、遗传结构评估,并可用于油棕遗传图谱的构建。

Applying 41977 expressed sequence tags （EST） of oil palm released in NCBI, 3946 SSR loci were identified. We designed primers for 27 SSR loci based on their flanking sequences and conducted amplification in 18 oil palm DNA samples. The amplification result showed that 10 SSR markers were polymorphic. According to the ten SSR makers, we used Principle Component Analysis to elucidate population structure of the 18 oil palm germplasm. Principle Component Analysis demonstrated that the 18 oil palm germplasm could be classified into two genetic groups： one was composed of oil palm germlasm collected from Gaolong bay and coconut institution in Wenchang city; the other including germ plasm introduced from Malaysia. This study showed that developed SSR markers could be used for characterization of genetic diversity, population structure and construction of genetic map for oil palm.