Assembly and comparative analysis of the complete mitochondrial genome of Brassica rapa var. Purpuraria
文献类型： 外文期刊
作者： Gong, Yihui 1 ; Xie, Xin 1 ; Zhou, Guihua 1 ; Chen, Meiyu 1 ; Chen, Zhiyin 1 ; Li, Peng 3 ; Huang, Hua 2 ;
作者机构： 1.Hunan Univ Humanities Sci & Technol, Coll Agr & Biotechnol, Dev & Utilizat & Qual & Safety Control Characteris, Loudi 417000, Peoples R China
2.Guangdong Acad Agr Sci, Inst Fruit Tree Res, Key Lab South Subtrop Fruit Biol & Genet Resource, Guangdong Prov Key Lab Trop & Subtrop Fruit Tree R, Guangzhou 510640, Peoples R China
3.Xiangtan Agr Sci Res Inst, Xiangtan 411100, Peoples R China
关键词： Brassica rapa var. Purpuraria; Mitochondrial genome; Repeat sequence; RNA editing; Phylogenetic analysis
期刊名称：BMC GENOMICS （ 影响因子：4.4； 五年影响因子：4.7 ）
ISSN： 1471-2164
年卷期： 2024 年 25 卷 1 期
页码：
收录情况： SCI
摘要： Background Purple flowering stalk (Brassica rapa var. purpuraria) is a widely cultivated plant with high nutritional and medicinal value and exhibiting strong adaptability during growing. Mitochondrial (mt) play important role in plant cells for energy production, developing with an independent genetic system. Therefore, it is meaningful to assemble and annotate the functions for the mt genome of plants independently. Though there have been several reports referring the mt genome of in Brassica species, the genome of mt in B. rapa var. purpuraria and its functional gene variations when compared to its closely related species has not yet been addressed. Results The mt genome of B. rapa var. purpuraria was assembled through the Illumina and Nanopore sequencing platforms, which revealed a length of 219,775 bp with a typical circular structure. The base composition of the whole B. rapa var. purpuraria mt genome revealed A (27.45%), T (27.31%), C (22.91%), and G (22.32%). 59 functional genes, composing of 33 protein-coding genes (PCGs), 23 tRNA genes, and 3 rRNA genes, were annotated. The sequence repeats, codon usage, RNA editing, nucleotide diversity and gene transfer between the cp genome and mt genome were examined in the B. rapa var. purpuraria mt genome. Phylogenetic analysis show that B. rapa var. Purpuraria was closely related to B. rapa subsp. Oleifera and B. juncea. Ka/Ks analysis reflected that most of the PCGs in the B. rapa var. Purpuraria were negatively selected, illustrating that those mt genes were conserved during evolution. Conclusions The results of our findings provide valuable information on the B.rapa var. Purpuraria genome, which might facilitate molecular breeding, genetic variation and evolutionary researches for Brassica species in the future.
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