世界科学技术-中医药现代化2025，Vol.27Issue(1)：84-97,14.DOI:10.11842/wst.20240302003
阴地蕨属药用植物光合作用关键酶RuBisCO的核质协同进化研究
The Cytonuclear Coordination Study of the Key Photosynthesis Enzyme RuBisCO in Botrychium Species
摘要
Abstract
Objective To establish the phylogenic relationships among genus Botrychium,and to develop better molecular markers,along with to gain better understanding of cytonuclear coordination patterns of RuBisCO enzyme,the current article sampled two species(e.g.Botrychium ternatum(Thunb.)Sw.and Botrychium virginianum(L.)Sw.),and applied sequencing approaches for the data mining.Methods The assembly results of chloroplast(cp)genomes from B.ternatum and B.virginianum were determined via de novo hybrid assemble approach with the help of short reads(Illumina)and long reads(PacBio and Nanopore).Then the phylogenic relationships of 18 fern species were reconstructed based on the protein coding sequences from the cp genome and the rbcS gene,which were fished out of the RNA-seq data from SRA database,respectively.Then the adaptive selection and co-evolutionary analysis were employed to investigate the evolutionary trajectories of rbcL(cp genome)and rbcS(nuclear genome)genes.Results The full length of cp genome in the two genus Botrychium species were determined as 139 063 bp(NC_060644)and 139 372 bp(OR609363).Then 92 SSR sites and 78 SSR sites were identified in the current two cp genomes,respectively.The collinearity analysis showed high relevant relationship between the current two species,and significant relationship within both species among the inverted repeats regions.The adaptation and coevolution investigations illustrated the following results:①Coevolution network exists between RBCL and RBCS subunits from the fern RuBisCO enzyme.②Positively selected sites were significantly detected among both rbcL and rbcS genes.③Two coevolutionary pair sites from the two genes(e.g.site 11 in RBCL and site 106 in RBCS)were significantly positively selected,which may demonstrate a molecular pattern for the fern species fine-tuning the RuBisCO enzyme during the long earth history via the cytonuclear coordination.Conclusion Our current research shed a new light on the phylogenetic relationship of the genus Botrychium among the fern backbone-tree and provided amount of cpSSR sites with the potential as molecular markers for further population study on B.ternatum and B.virginianum.Moreover,our adaptation and coevolution investigations on rbcL and rbcS genes might indicate that the underlying cytonuclear coordination between the organelle and nuclear in cell of fern species for fine-tuning the key photosynthesis enzyme RuBisCO to gain better fitness according to the changing environment of earth during the geologic time-scale.关键词
RuBisCO酶/阴地蕨属/叶绿体基因组/rbcS基因/共进化分析Key words
RuBisCO enzyme/Genus Botrychium/Chloroplast genome/rbcS gene/Co-evolutionary analysis分类
医药卫生引用本文复制引用
曾宇灵,朱明玉,李伟,刘义飞,张景景,雷笛,森林..阴地蕨属药用植物光合作用关键酶RuBisCO的核质协同进化研究[J].世界科学技术-中医药现代化,2025,27(1):84-97,14.基金项目
国家自然科学基金委员会青年基金项目(31500260):中国阴地蕨属药用草本植物系统学及分子进化研究,负责人:森林 （31500260）
刘合钢全国名老中医药专家传承工作室建设项目,负责人:刘合刚. （）
