Hunan Vegetable Research Institute, Changsha 410125, Hunan, China.
Am J Bot. 2012 Feb;99(2):e59-61. doi: 10.3732/ajb.1100347. Epub 2012 Jan 26.
The redundancies in expressed sequence tags (ESTs) in the National Center for Biotechnology Information sequence database were used to identify and develop polymorphic simple sequence repeat (SSR) markers for pepper (Capsicum annuum).
Sixty-eight polymorphic SSR loci were identified in the contigs (containing redundant ESTs) generated by assembling 118060 pepper ESTs from the public sequence database. Thirty-three SSR markers exhibited polymorphism among 31 pepper varieties, with alleles per SSR marker ranging from two to six. The mean observed and expected heterozygosity were 0.28 and 0.39, respectively. There were 18 SSR markers with a motif repeat number of less than five, accounting for 55% of the total.
We demonstrated the value of mining the redundant sequences in public sequence databases for the development of polymorphic SSR markers, which can be used for marker-assisted breeding in pepper.
利用国家生物技术信息中心序列数据库中表达序列标签（EST）的冗余序列，鉴定并开发辣椒（Capsicum annuum）多态性简单重复序列（SSR）标记。
从公共序列数据库中组装了 118060 个辣椒 EST，生成了含有冗余 EST 的重叠群（contigs），从中鉴定出 68 个多态性 SSR 位点。在 31 个辣椒品种中，33 个 SSR 标记表现出多态性，每个 SSR 标记的等位基因数从两个到六个不等。平均观测杂合度和期望杂合度分别为 0.28 和 0.39。有 18 个 SSR 标记的重复次数少于 5，占总数的 55%。
我们证明了从公共序列数据库中挖掘冗余序列以开发多态性 SSR 标记的价值，这些标记可用于辣椒的标记辅助育种。
