College of Life Science, Shanxi Agricultural University, Taigu 030801, China.
College of Plant Protection, Northwest Agriculture & Forestry University, Yangling 712100, China.
Int J Mol Sci. 2017 Oct 31;18(11):2288. doi: 10.3390/ijms18112288.
is an important medicinal plant and traditionally applied for the treatment of inflammation, pyrexia, gonorrhea, diabetes, and so on. However, there is limited sequence and genomic information available for . Here, we produced the complete chloroplast genomes of using Illumina sequencing technology. is the first sequenced member within the genus (Oleaceae). The gene order and organization of the chloroplast genome of are similar to other Oleaceae chloroplast genomes. The chloroplast genome is 156,404 bp in length, exhibits a conserved quadripartite structure with a large single-copy (LSC; 87,159 bp) region, and a small single-copy (SSC; 17,811 bp) region interspersed between inverted repeat (IRa/b; 25,717 bp) regions. A total of 114 unique genes were annotated, including 80 protein-coding genes, 30 tRNA, and four rRNA. The low GC content (37.8%) and codon usage bias for A- or T-ending codons may largely affect gene codon usage. Sequence analysis identified a total of 26 forward repeats, 23 palindrome repeats with lengths >30 bp (identity > 90%), and 54 simple sequence repeats (SSRs) with an average rate of 0.35 SSRs/kb. We predicted 52 RNA editing sites in the chloroplast of , all for C-to-U transitions. IR expansion or contraction and the divergent regions were analyzed among several species including the reported in this study. Phylogenetic analysis based on whole-plastome revealed that , as a member of the Oleaceae family, diverged relatively early from Lamiales. This study will contribute to strengthening medicinal resource conservation, molecular phylogenetic, and genetic engineering research investigations of this species.
是一种重要的药用植物,传统上用于治疗炎症、发热、淋病、糖尿病等。然而,关于 的序列和基因组信息有限。在这里,我们使用 Illumina 测序技术生成了 的完整叶绿体基因组。 是 Oleaceae 属中第一个测序的成员。 的叶绿体基因组的基因顺序和组织与其他 Oleaceae 叶绿体基因组相似。 的叶绿体基因组长 156404bp,呈现出保守的四分体结构,具有一个大的单拷贝(LSC;87159bp)区域和一个小的单拷贝(SSC;17811bp)区域,散布在两个反向重复(IRa/b;25717bp)区域之间。共注释了 114 个独特的基因,包括 80 个蛋白质编码基因、30 个 tRNA 和 4 个 rRNA。低 GC 含量(37.8%)和 A 或 T 结尾密码子的密码子使用偏性可能在很大程度上影响基因密码子的使用。序列分析共鉴定出 26 个正向重复序列、23 个长度大于 30bp(同一性大于 90%)的回文重复序列和 54 个简单序列重复序列(SSR),平均每个 SSR 长度为 0.35kb。我们预测了 的叶绿体中有 52 个 RNA 编辑位点,均为 C 到 U 的转换。IR 扩张或收缩以及分歧区域在包括本研究中报道的 在内的几个物种中进行了分析。基于全质体的系统发育分析表明, 作为 Oleaceae 科的一员,与 Lamiales 相比,分化相对较早。这项研究将有助于加强对该物种的药用资源保护、分子系统发育和遗传工程研究。