Choi Ye-Rim, Kim Sang-Chul, Kim Tae-Hee, Ha Young-Ho, Kim Hyuk-Jin
Forest Biodiversity Division, Korea National Arboretum, Pocheon-si, Republic of Korea.
Mitochondrial DNA B Resour. 2024 Aug 6;9(8):1005-1009. doi: 10.1080/23802359.2024.2387262. eCollection 2024.
, a species endemic to Korea, has a limited distribution across the Korean Peninsula and is used in traditional medicine. Despite its importance, the genome structure, genetic composition, and phylogenetic relationships based on its chloroplast genome have not been documented. In this study, the complete chloroplast genome of was newly assembled. The chloroplast genome is 190,179 base pairs (bp) long, and the overall GC content (%) of the plastid was 36.8%. The chloroplast genome size of is longer than that of the normal chloroplast genome (160 kb) because of an inverted small single-copy (SSC) duplication that incorporates the SSC into an inverted repeat (IR) region. By extension, this duplication event causes this chloroplast genome to lack an SSC, unlike other formal structures. The chloroplast genome, with a tripartite structure, consisted of a single-copy region of 93,351 bp with a 34.6% GC content and two IR regions, each with a length of 48,414 bp and a 38.8% GC content. Additionally, it was found to have 113 genes, including 79 PCG genes, 30 tRNA genes, and four rRNA genes. Phylogenetic analysis revealed that was grouped with var. , which diverged from the clade comprising and . The newly sequenced chloroplast genome could provide valuable genomic information for determining unique genome structures, especially for the assessment of genetic diversity, phylogenetic relationships, species conservation, and biogeographic studies of the genus .
[物种名称]是韩国特有的物种，在朝鲜半岛分布有限，被用于传统医学。尽管其很重要，但基于其叶绿体基因组的基因组结构、遗传组成和系统发育关系尚未见报道。在本研究中，新组装了[物种名称]的完整叶绿体基因组。叶绿体基因组长度为190,179碱基对（bp），质体的总体GC含量（%）为36.8%。[物种名称]的叶绿体基因组大小比正常叶绿体基因组（160 kb）长，这是因为一个反向小单拷贝（SSC）重复将SSC纳入了反向重复（IR）区域。通过扩展，这种重复事件导致该叶绿体基因组与其他正式结构不同，缺少一个SSC。该叶绿体基因组具有三方结构，由一个93,351 bp的单拷贝区域（GC含量为34.6%）和两个IR区域组成，每个IR区域长度为48,414 bp，GC含量为38.8%。此外，发现它有113个基因，包括79个PCG基因、30个tRNA基因和4个rRNA基因。系统发育分析表明，[物种名称]与[变种名称]var. [变种名称]聚在一起，后者从包括[物种名称]和[物种名称]的分支中分化出来。新测序的[物种名称]叶绿体基因组可为确定独特的基因组结构提供有价值的基因组信息，特别是用于评估该属的遗传多样性、系统发育关系、物种保护和生物地理学研究。
