Ruang-Areerate Panthita, Pinsupa Suparat, Kongkachana Wasitthee, Yoocha Thippawan, Phetchawang Phakamas, Paenpong Peeraphat, Somta Prakit, Laosatit Kularb, Tangphatsornruang Sithichoke, Pootakham Wirulda
National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani, Thailand.
Department of Agronomy, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom, Thailand.
PLoS One. 2025 Jun 11;20(6):e0325243. doi: 10.1371/journal.pone.0325243. eCollection 2025.
Vigna reflexo-pilosa can be found in both wild and cultivated forms. It is the only tetraploid species in the genus Vigna in Fabaceae, occurring through hybridization between Vigna hirtella and Vigna trinervia, with the chromosome number of 2n = 4x = 44. V. reflexo-pilosa provides an invaluable gene pool for improving cultivated Vigna crop varieties. This study aimed to report the complete mitochondrial and chloroplast genomes of V. reflexo-pilosa. A total of 6,496,297 raw reads were generated from V. reflexo-pilosa using the long-read PacBio technology. The complete mitochondrial genome was assembled into a linear structure with a total length of 370,913 base pairs (bp) with 45.20% GC content. It contains 32 protein-coding genes, 18 transfer RNA genes, and 3 ribosomal RNA genes. A total of 520 RNA editing sites were detected in 30 protein-coding genes. The V. reflexo-pilosa mitochondrial genome shared large colinear blocks with Vigna radiata as compared to nine other mitochondrial genomes in Fabaceae. In addition, Vigna hirtella (male parent) and Vigna trinervia (female parent) were sequenced using the MGI sequencing technology. The complete chloroplast genome of V. reflexo-pilosa, V. hirtella, and V. trinervia was assembled into a circular structure with a total length of 150,967, 151,915 and 151,226 bp, respectively. All three chloroplast genomes consist of 128 genes. We found no evidence of shared genes between the mitochondrial and chloroplast genomes of V. reflexo-pilosa. Comparison of the three Vigna chloroplast genomes showed high levels of similarity between V. reflexo-pilosa and V. trinervia, revealing maternal inheritance of the chloroplast genomes. Based on both mitochondrial and chloroplast genes, phylogenetic trees showed that V. reflexo-pilosa is closely related to V. radiata. These genomes enhance our understanding of mitochondrial and chloroplast evolution of V. reflexo-pilosa and are valuable genetic resources in legumes.
毛蔓豆有野生和栽培两种形式。它是豆科豇豆属中唯一的四倍体物种，由硬毛豇豆和三脉豇豆杂交产生，染色体数为2n = 4x = 44。毛蔓豆为改良栽培豇豆作物品种提供了宝贵的基因库。本研究旨在报道毛蔓豆完整的线粒体和叶绿体基因组。使用长读长PacBio技术从毛蔓豆中总共产生了6,496,297条原始读数。完整的线粒体基因组组装成线性结构，全长370,913碱基对（bp），GC含量为45.20%。它包含32个蛋白质编码基因、18个转运RNA基因和3个核糖体RNA基因。在30个蛋白质编码基因中总共检测到520个RNA编辑位点。与豆科其他九个线粒体基因组相比，毛蔓豆线粒体基因组与绿豆有大片共线区域。此外，使用MGI测序技术对硬毛豇豆（父本）和三脉豇豆（母本）进行了测序。毛蔓豆、硬毛豇豆和三脉豇豆的完整叶绿体基因组组装成环状结构，全长分别为150,967、151,915和151,226 bp。所有三个叶绿体基因组都由128个基因组成。我们没有发现毛蔓豆线粒体和叶绿体基因组之间存在共享基因的证据。对三种豇豆叶绿体基因组的比较表明，毛蔓豆和三脉豇豆之间具有高度的相似性，揭示了叶绿体基因组的母系遗传。基于线粒体和叶绿体基因的系统发育树表明，毛蔓豆与绿豆密切相关。这些基因组增强了我们对毛蔓豆线粒体和叶绿体进化的理解，是豆类中有价值的遗传资源。
