三叶崖爬藤叶绿体基因组的组装与序列分析

目的以药用植物三叶崖爬藤为材料,在利用高通量技术测定DNA序列的基础上,对叶绿体基因组进行组装和序列分析,为进一步开展群体遗传学和多样性研究奠定基础。方法利用HiSeqXTen测定三叶崖爬藤的DNA序列,用NOVOPlasty组装叶绿体基因组,在基因注释的基础上开展序列分析。结果三叶崖爬藤叶绿体基因组的全长为160 189 bp,GC值37.5%,具1个典型的四分区域结构,包括1个大单拷贝区、1对反向重复区和1个小单拷贝区,序列长度分别为88 184、26 519、18 967 bp。三叶崖爬藤的叶绿体基因组共有133个基因,其中编码蛋白基因、rRNA基因与tRNA基因的数量分别为88、8、37个。位于反向重复区和小单拷贝区的ycf1基因3’端发生缺失,是1个假基因。结论三叶崖爬藤的叶绿体基因组的组装和序列分析为后续开展群体遗传学和遗传多样性研究奠定了基础。

Assembly and sequence analysis of Tetrastigma hemsleyanum chloroplast genome

Objective The complete chloroplast genome of medicinal plant Tetrastigma hemsleyanum sequenced by high-throughput technologies was assembled for the sequence analysis to provide evidence for its population genetics and diversity studies. Methods HiSeq X Ten was used to sequence DNA of T. hemsleyanum, and the chloroplast genome was assembled by NOVOPlasty. Sequence analysis was performed based on gene annotation results. Results The complete chloroplast genome of T. hemsleyanum was 160 189 bp in length with a GC content of 37.5%. The chloroplast genome exhibited a typical quadripartite structure, including a large single copy region, a pair of inverted repeats, and a small single copy, and the sequence lengths were 88 184 bp, 26 519 bp, and 18 967 bp, respectively. The chloroplast genome harbored 133 genes, including 88 protein-coding genes, eight rRNA genes, and 37 tRNA genes. The ycf1 gene located at the border of IR/SSC was proved to be a pseudogene, with its 3'' end truncated. Conclusion Sequence assembly and analysis of T. hemsleyanum chloroplast genome provide new insights into future studies on both population genetics and genetic diversity.