The Complete Chloroplast Genome Sequences of Six Rehmannia Species.
The Complete Chloroplast Genome Sequences of Six Rehmannia Species.
复制标题
六种地黄叶绿体基因组全序列
DOI：
10.3390/genes8030103
复制
发表时间：
2017-03-15
期刊：
影响因子：
3.5
通讯作者：
Liu ZL
中科院分区：
文献类型：
--
作者：
Zeng S;Zhou T;Han K;Yang Y;Zhao J;Liu ZL
地黄是防己科的一个非寄生属，有6种，主要分布于中国中部和北部。由于潜在的杂交和多倍化，它的系统发育地位和属下关系仍然不确定。在这项研究中，我们使用Illumina测序技术对六种地黄属植物的叶绿体全基因组进行了测序和比较，以阐明种间差异。生地黄质体具典型的四分体和环状结构，具有良好的基因序列共性。基因组全长153,622~154,055 bp，包括编码88个蛋白质的133个基因、37个tRNAs和8个rRNAs。有三个基因(rpoA、rpoC2、accd)可能经历了正选择。地黄的大小变异主要归因于反向重复(IR)区和单拷贝(SC)区之间的交界区的扩张和收缩。尽管地黄的质体结构保守，但序列变异提供了有用的系统发育信息。用完整的质体库构建的23种地黄的系统发育树表明，地黄是单系植物，与胡麻属分支和萝卜科的寄生类群是姊妹种。地黄中的种间关系与以前的研究完全不同。在未来，迫切需要以质体体为基础的种群系统基因组学工作来阐明地黄的进化史。
Rehmannia is a non-parasitic genus in Orobanchaceae including six species mainly distributed in central and north China. Its phylogenetic position and infrageneric relationships remain uncertain due to potential hybridization and polyploidization. In this study, we sequenced and compared the complete chloroplast genomes of six Rehmannia species using Illumina sequencing technology to elucidate the interspecific variations. Rehmannia plastomes exhibited typical quadripartite and circular structures with good synteny of gene order. The complete genomes ranged from 153,622 bp to 154,055 bp in length, including 133 genes encoding 88 proteins, 37 tRNAs, and 8 rRNAs. Three genes (rpoA, rpoC2, accD) have potentially experienced positive selection. Plastome size variation of Rehmannia was mainly ascribed to the expansion and contraction of the border regions between the inverted repeat (IR) region and the single-copy (SC) regions. Despite of the conserved structure in Rehmannia plastomes, sequence variations provide useful phylogenetic information. Phylogenetic trees of 23 Lamiales species reconstructed with the complete plastomes suggested that Rehmannia was monophyletic and sister to the clade of Lindenbergia and the parasitic taxa in Orobanchaceae. The interspecific relationships within Rehmannia were completely different with the previous studies. In future, population phylogenomic works based on plastomes are urgently needed to clarify the evolutionary history of Rehmannia.