Raman Gurusamy, Park Veronica, Kwak Myounghai, Lee Byoungyoon, Park SeonJoo
Department of Life Sciences, Yeungnam University, Gyeongsan, Gyeongsan-buk, Republic of Korea.
Mcneil high school, Austin, Texas, United States of America.
PLoS One. 2017 Aug 15;12(8):e0183197. doi: 10.1371/journal.pone.0183197. eCollection 2017.
Arabis stellari var. japonica is an ornamental plant of the Brassicaceae family, and is widely distributed in South Korea. However, no information is available about its molecular biology and no genomic study has been performed on A. stellari. In this paper, the authors report the complete chloroplast genome sequence of A. stellari. The plastome of A. stellari was 153,683 bp in length with 36.4% GC and included a pair of inverted repeats (IRs) of 26,423 bp that separated a large single-copy (LSC) region of 82,807 bp and a small single-copy (SSC) region of 18,030 bp. It was also found to contain 113 unique genes, of which 79 were protein-coding genes, 30 were transfer RNAs, and four were ribosomal RNAs. The gene content and organization of the A. stellari chloroplast genome were similar to those of other Brassicaceae genomes except for the absence of the rps16 protein-coding gene. A total of 991 SSRs were identified in the genome. The chloroplast genome of A. stellari was compared with closely related species of the Brassicaceae family. Comparative analysis showed a minor divergence occurred in the protein-coding matK, ycf1, ccsA, accD and rpl22 genes and that the KA/KS nucleotide substitution ratio of the ndhA genes of A. stellari and A. hirsuta was 1.35135. The genes infA and rps16 were absent in the Arabis genus and phylogenetic evolutionary studies revealed that these genes evolved independently. However, phylogenetic analysis showed that the positions of Brassicaceae species are highly conserved. The present study provides A. stellari genomic information that may be found useful in conservation and molecular phylogenetic studies on Brassicaceae.
日本小柱芥是十字花科的一种观赏植物，广泛分布于韩国。然而，关于其分子生物学的信息尚无报道，且尚未对小柱芥进行基因组研究。在本文中，作者报道了小柱芥完整的叶绿体基因组序列。小柱芥的质体基因组长度为153,683 bp，GC含量为36.4%，包含一对26,423 bp的反向重复序列（IRs），该重复序列将一个82,807 bp的大单拷贝（LSC）区域和一个18,030 bp的小单拷贝（SSC）区域分隔开来。还发现它包含113个独特基因，其中79个是蛋白质编码基因，30个是转运RNA，4个是核糖体RNA。除了缺少rps16蛋白质编码基因外，小柱芥叶绿体基因组的基因内容和组织与其他十字花科基因组相似。在基因组中总共鉴定出991个简单序列重复（SSRs）。将小柱芥的叶绿体基因组与十字花科的近缘物种进行了比较。比较分析表明，在蛋白质编码基因matK、ycf1、ccsA、accD和rpl22中发生了微小差异，并且小柱芥和多毛小柱芥的ndhA基因的KA/KS核苷酸替换率为1.35135。在小柱芥属中不存在基因infA和rps16，系统发育进化研究表明这些基因是独立进化的。然而，系统发育分析表明十字花科物种的位置高度保守。本研究提供了小柱芥的基因组信息，这些信息可能在十字花科的保护和分子系统发育研究中有用。
