Development of Simple Sequence Repeat (SSR) Markers of Sesame (Sesamum indicum) from a Genome Survey
Development of Simple Sequence Repeat (SSR) Markers of Sesame (Sesamum indicum) from a Genome Survey
复制标题
通过基因组调查开发芝麻 (Sesamum indicum) 的简单序列重复 (SSR) 标记
DOI：
10.3390/molecules19045150
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发表时间：
2014-04-01
期刊：
影响因子：
4.6
通讯作者：
Zhang, Xiurong
中科院分区：
文献类型：
--
作者：
Wei, Xin;Wang, Linhai;Zhang, Xiurong
芝麻（Sesamumindicum）是一种重要的油料作物，广泛种植于热带和亚热带地区.它为世界上几乎一半的人口提供部分每日食用油。芝麻遗传多样性和种质鉴定研究中，共显性标记的数量有限。本文首次报道了芝麻种质资源的全基因组调查，用于开发简单重复序列（SSR）标记和检测芝麻种质资源的遗传多样性。从最初组装的芝麻基因组中，鉴定出23，438个SSR（>= 5个重复）。重复序列以二核苷酸为主，占84.24%，其次为三核苷酸、四核苷酸、五核苷酸和六核苷酸，分别占13.53%、1.65%、0.3%和0.28%。从设计合成的1500对引物中筛选出218个多态性SSR标记，对来自12个国家的31份芝麻材料进行了筛选。结构分析和系统发育分析表明，所有芝麻材料可分为两大类：一类主要来自中国，另一类来自其他国家。聚类分析将我国主要芝麻品种分为3类。这些新的SSR标记为芝麻遗传连锁图谱的构建、遗传多样性检测和分子标记辅助选择育种提供了有用的工具。
Sesame (Sesamum indicum), an important oil crop, is widely grown in tropical and subtropical regions. It provides part of the daily edible oil allowance for almost half of the world's population. A limited number of co-dominant markers has been developed and applied in sesame genetic diversity and germplasm identity studies. Here we report for the first time a whole genome survey used to develop simple sequence repeat (SSR) markers and to detect the genetic diversity of sesame germplasm. From the initial assembled sesame genome, 23,438 SSRs (>= 5 repeats) were identified. The most common repeat motif was dinucleotide with a frequency of 84.24%, followed by 13.53% trinucleotide, 1.65% tetranucleotide, 0.3% pentanucleotide and 0.28% hexanucleotide motifs. From 1500 designed and synthesised primer pairs, 218 polymorphic SSRs were developed and used to screen 31 sesame accessions that from 12 countries. STRUCTURE and phylogenetic analyses indicated that all sesame accessions could be divided into two groups: one mainly from China and another from other countries. Cluster analysis classified Chinese major sesame varieties into three groups. These novel SSR markers are a useful tool for genetic linkage map construction, genetic diversity detection, and marker-assisted selective sesame breeding.