Nawae Wanapinun, Yundaeng Chutintorn, Naktang Chaiwat, Kongkachana Wasitthee, Yoocha Thippawan, Sonthirod Chutima, Narong Nattapol, Somta Prakit, Laosatit Kularb, Tangphatsornruang Sithichoke, Pootakham Wirulda
National Omics Center (NOC), National Science and Technology Development Agency, 111 Thailand Science Park, Khlong Nueng, Khlong Luang, Pathum Thani 12120, Thailand.
Department of Agronomy, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Nakhon Pathom 73140, Thailand.
Plants (Basel). 2020 Sep 21;9(9):1247. doi: 10.3390/plants9091247.
is cultivated in approximately 5 million hectares worldwide. The chloroplast genome of this species has not been previously reported. In this study, we sequenced the genome and transcriptome of the chloroplast. We identified many positively selected genes in the photosynthetic pathway (e.g., , , and ) and RNA polymerase genes (e.g., ) from the comparison of the chloroplast genome of , temperate legume species, and tropical legume species. Our transcriptome data from PacBio isoform sequencing showed that the 51-kb DNA inversion could affect the transcriptional regulation of polycistronic. Using Illumina deep RNA sequencing, we found RNA editing of in the leaf, shoot, flower, fruit, and root tissues of . We also found three G-to-A RNA editing events that change guanine to adenine in the transcripts transcribed from the adenine-rich regions of the gene. The edited guanine bases were found particularly in the chloroplast genome of the species. These G-to-A RNA editing events were likely to provide a mechanism for correcting DNA base mutations. The chloroplast genome sequence and the analysis results obtained in this study can apply to phylogenetic studies and chloroplast genome engineering.
该物种在全球约500万公顷的土地上种植。此前尚未报道过该物种的叶绿体基因组。在本研究中，我们对叶绿体的基因组和转录组进行了测序。通过对该物种、温带豆科植物和热带豆科植物的叶绿体基因组比较，我们在光合途径（如 、 、 ）和RNA聚合酶基因（如 ）中鉴定出许多正选择基因。我们来自PacBio异构体测序的转录组数据表明，51-kb的DNA倒位可能会影响多顺反子的转录调控。利用Illumina深度RNA测序，我们在该物种的叶、茎、花、果实和根组织中发现了 的RNA编辑。我们还发现了三个G-to-A RNA编辑事件，这些事件将 基因富含腺嘌呤区域转录的转录本中的鸟嘌呤转变为腺嘌呤。编辑后的鸟嘌呤碱基尤其在该物种的叶绿体基因组中被发现。这些G-to-A RNA编辑事件可能为纠正DNA碱基突变提供一种机制。本研究获得的该物种叶绿体基因组序列及分析结果可应用于系统发育研究和叶绿体基因组工程。
