Abstract

Tagetes erecta L. is an important commercial and medicinal plant. In this study, we reported the complete chloroplast genome sequence of T. erecta. The genome has a circular structure of 152,076 bp containing a large single-copy region (LSC) of 83,914 bp, a small copy region (SSC) of 18,064 bp, and two inverted repeats (IR) of 25,049 bp by each. It harbors 111 unique genes, including 79 protein-coding genes, 4 ribosomal RNA genes, and 28 transfer RNA genes. A total of 41 microsatellite, 20 tandem, and 37 interspersed repeats were detected in the genome. The phylogenomic analysis shows that T. erecta is a single phylogenetic cluster. The complete chloroplast genome of T. erecta lays the foundation for the phylogenetic, evolutionary, and conservation studies of the genus Tagetes. Furthermore, the intergenic region of atpB-rbcL was variable among the species T. erecta. This suggests that this region might be a mutation hotspot and will be useful for phylogenetic study and the development of molecular markers. At last, we systematically identified the RNA editing sites in the chloroplast genome of T. erecta based on the transcriptome downloaded from the SRA database. This study identified the characteristics of the T. erecta chloroplast genome, SNPs, and RNA editing sites, which will facilitate species identification and phylogenetic analysis within T. erecta.

摘要

万寿菊是一种重要的商业和药用植物。在这项研究中，我们报告了T. erecta的完整叶绿体基因组序列。该基因组具有152,076 bp的环状结构，其中包含83,914 bp的大单拷贝区域（LSC），18,064 bp的小拷贝区域（SSC）和每个25,049 bp的两个反向重复序列（IR）。它包含111个独特基因，包括79个蛋白质编码基因，4个核糖体RNA基因和28个转移RNA基因。基因组中总共检测到41个微卫星，20个串联和37个散布的重复序列。系统学分析表明，直立螺旋体是单个系统发生簇。棉铃虫的完整叶绿体基因组为万寿菊属的系统发育，进化和保存研究奠定了基础。此外，atp B- rbc L的基因间区域在直立物种T. erecta中是可变的。这表明该区域可能是突变热点，将对系统发育研究和分子标记的开发有用。最后，我们根据从SRA数据库下载的转录组，系统地鉴定了直立茎叶绿体基因组中的RNA编辑位点。这项研究确定了棉铃虫叶绿体基因组，SNP和RNA编辑位点的特征，这将有助于物种鉴定和系统发育分析。T.直立。