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该研究通过组装川芎根转录组数据获得24 422个unigene,随后对得到的unigene进行了SSR检测,共检测到4 073个SSR位点。对检测到的EST-SSR进行特征分析,结果显示单核苷酸重复最多,占41.0%。SSR所在序列功能注释结果显示在Nr中有2 201条序列能够被注释,同时SSR所在序列还被注释到49个GO分类和242个KEGG代谢通路中。利用SSR检测结果进行了EST-SSR标记开发,合成其中235对引物进行验证,74对扩增效果较好。利用74对EST-SSR引物对34个川芎资源进行遗传多样性分析,结果显示收集的川芎资源多样性较好,UPGMA聚类显示川芎资源分为两大类,聚类结果表现出一定的地域性,PCo A分析与UPGMA聚类结果类似。该研究首次对川芎进行EST-SSR分析和标记开发,对推动川芎资源遗传多样性研究、品种纯度检测、基因定位和分子育种等具有重要意义。
In this study, 24 422 unigene were obtained through the assembly of the transcriptome of Chuanxiong rhizome. SSR detection was performed on the obtained unigene. A total of 4 073 SSR loci were detected. The characteristics of EST-SSR detected were analyzed. The results showed that the single nucleotide repeat was the most, accounting for 41.0%. The functional annotation results of the sequence of SSR showed that 2 201 sequences could be annotated in Nr, and the sequence of SSR was also annotated into 49 GO class and 242 KEGG metabolic pathways. The EST-SSR marker was developed based on the SSR test results, of which 235 primers were validated, and 74 pairs showed good amplification. The genetic diversity of 34 Chuanxiong resources was analyzed by using 74 pairs of EST-SSR primers. The results showed that the Chuanxiong resources collected were highly diversity. UPGMA clustering showed that the Chuanxiong resources were divided into two groups, and the clustering results showed a certain regional The PCo A analysis is similar to the UPGMA clustering results. This study is the first to carry out EST-SSR analysis and marker development of Ligusticum chuanxiong Hort. It is of great significance to promote the genetic diversity of Ligusticum chuanxiong, purity testing, gene mapping and molecular breeding.