辣椒转录组SSR挖掘及其多态性分析

SSR Mining in Pepper(Capsicum annuum L.) Transcriptome and the Polymorphism Analysis

利用SSR检索程序从两个辣椒转录组共221037条unigenes(97.3Mb)中筛选得到17319个SSR位点(7.83%),其发生频率为1/56kb。其中以单核苷重复基序为主导类型,占总SSR的56.30%;其次是二、三核苷酸重复基序,其出现频率分别为19.16%和23.18%。对所有含SSR位点EST序列设计的10468对引物进行E-PCR多态性检测,获得1538对E-PCR多态性引物。随机选取20对引物进行验证,其中7对(36.84%)在10个不同类型辣椒材料中表现出多态性,PIC值范围为0.33～0.89,平均为0.67,将10个辣椒材料分为3类。这些潜在的多态性EST-SSR的开发为辣椒遗传多样性分析、图谱构建提供了更丰富的候选分子标记。

In this study, we investigated 221 037 unigenes （97.3 Mb） from two transcriptome in pepper using SSR finding soft. In total, 17 319 （7.83%） SSRs were identified from these SSR-containing unique ESTs with the occurring frequency of 1/56 kb. Among, single nucleotide type （56.30%）is the most abundant, followed by di（19.16%）, tri （23.18%） . A total of 10 468 primer pairs were successfully designed and 1 538 primer pairs exhibited polymorphism by EPCR 19 out of 20 primer pairs selected at random yielded amplification products, of which 7 primer pairs showed polymorphism among 10 different pepper varieties, PIC ranged from 0.33 - 0.89, average 0.67, and 10 pepper breeds were grouped into three classes. This results indicate that molecular markers will be more usable in map structure, analysis of genetic polymorphism in pepper.