Khan Arif, Asaf Sajjad, Khan Abdul Latif, Shehzad Tariq, Al-Rawahi Ahmed, Al-Harrasi Ahmed
Natural and Medical Sciences Research Center, University of Nizwa, Nizwa 616, Oman.
Genomics Group, Faculty of Biosciences and Aquaculture, Nord University, 8049 Bodø, Norway.
Plants (Basel). 2020 Feb 5;9(2):199. doi: 10.3390/plants9020199.
is one of the largest genera in the Euphorbiaceae family, comprising 2000 species possessing commercial, medicinal, and ornamental importance. However, there are very little data available on their molecular phylogeny and genomics, and uncertainties still exist at a taxonomic level. Herein, we sequence the complete chloroplast (cp) genomes of two species, , of the genus through next-generation sequencing and perform a comparative analysis with nine related genomes in the family. The results revealed that the cp genomes had similar quadripartite structure, gene content, and genome organization with previously reported genomes from the same family. The size of cp genomes ranged from 162,172 to 162,358 bp with 132 and 133 genes, 8 rRNAs, 39 tRNA in and , respectively. The numbers of protein-coding genes were 85 and 86, with each containing 19 introns. The four-junction regions were studied and results reveal that was present at J (large single copy region and inverted repeat b junction) in where its complete presence was located in the IRb (inverted repeat b) region in . The sequence comparison revealed that highly divergent regions in , , , , , , and of the cp genomes might provide better understanding of phylogenetic inferences in the and order Malpighiales. Phylogenetic analyses of this study illustrate sister clades of with and these species form a monophyletic clade with . The current study might help us to understand the genome architecture, genetic diversity among populations, and evolutionary depiction in the genera.
是大戟科最大的属之一，包含2000个具有商业、药用和观赏价值的物种。然而，关于它们的分子系统发育和基因组学的数据非常少，并且在分类水平上仍然存在不确定性。在此，我们通过下一代测序对该属的两个物种的完整叶绿体（cp）基因组进行测序，并与该科的九个相关基因组进行比较分析。结果表明，cp基因组具有与先前报道的同科基因组相似的四分体结构、基因含量和基因组组织。cp基因组的大小在162,172至162,358 bp之间，分别在和中含有132和133个基因、8个rRNA、39个tRNA。蛋白质编码基因的数量分别为85和86个，每个都含有19个内含子。对四个连接区域进行了研究，结果表明在中J（大单拷贝区域和反向重复b连接点）处存在，而其完整存在位于中的IRb（反向重复b）区域。序列比较表明，cp基因组的、、、、、和中的高度分化区域可能有助于更好地理解和金虎尾目在系统发育推断方面的情况。本研究的系统发育分析表明与是姐妹分支，并且这些物种与形成一个单系分支。当前的研究可能有助于我们了解该属的基因组结构、种群间的遗传多样性以及进化描述。
