Characterization and Analysis of the Mitochondrial Genome of Common Bean (Phaseolus vulgaris) by Comparative Genomic Approaches
Characterization and Analysis of the Mitochondrial Genome of Common Bean (Phaseolus vulgaris) by Comparative Genomic Approaches
复制标题
DOI：
10.3390/ijms21113778
复制
发表时间：
2020-06-01
影响因子：
5.6
通讯作者：
Lu, Zuhong
中科院分区：
文献类型：
--
作者：
Bi, Changwei;Lu, Na;Lu, Zuhong
菜豆（Phaseolus vulgaris）是人类蛋白质和必需营养素的主要来源。为探讨普通对虾的遗传多样性和系统发育关系，对普通对虾的线粒体基因组进行了全序列测定和组装。有丝分裂基因组全长395，516 bp，包括31个独特的蛋白质编码基因（PCG）、15个转运RNA（tRNA）基因和3个核糖体RNA（rRNA）基因。在31个PCG中，4个基因（mttB、nad 1、nad 4L和rps 10）使用ACG作为起始密码子，通过RNA编辑将其改变为标准起始密码子。此外，ccmF（C）基因中的终止密码子CGA转化为UGA。选择压力分析表明ccmB、ccmF（C）、rps1、rps10和rps14基因处于进化正选择中。5种氨基酸（Phe、Leu、Pro、Arg和Ser）在每个有丝分裂基因组蛋白质的整个氨基酸谱中所占的比例可以用来区分被子植物和裸子植物。系统发育分析表明，与其他豆科植物相比，野豌豆在进化上更接近大豆亚科。本研究的结果不仅提供了一个重要的机会，进行进一步的基因组育种研究在普通豆类，他们也提供了宝贵的信息，为未来的进化和分子研究豆科植物。
The common bean (Phaseolus vulgaris) is a major source of protein and essential nutrients for humans. To explore the genetic diversity and phylogenetic relationships of P. vulgaris, its complete mitochondrial genome (mitogenome) was sequenced and assembled. The mitogenome is 395,516 bp in length, including 31 unique protein-coding genes (PCGs), 15 transfer RNA (tRNA) genes, and 3 ribosomal RNA (rRNA) genes. Among the 31 PCGs, four genes (mttB, nad1, nad4L, and rps10) use ACG as initiation codons, which are altered to standard initiation codons by RNA editing. In addition, the termination codon CGA in the ccmF(C) gene is converted to UGA. Selective pressure analysis indicates that the ccmB, ccmF(C), rps1, rps10, and rps14 genes were under evolutionary positive selection. The proportions of five amino acids (Phe, Leu, Pro, Arg, and Ser) in the whole amino acid profile of the proteins in each mitogenome can be used to distinguish angiosperms from gymnosperms. Phylogenetic analyses show that P. vulgaris is evolutionarily closer to the Glycininae than other leguminous plants. The results of the present study not only provide an important opportunity to conduct further genomic breeding studies in the common bean, they also provide valuable information for future evolutionary and molecular studies of leguminous plants.