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了哥王叶绿体基因组分析

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  • 国家科技期刊平台
  • NETL
  • NSTL
  • 万方数据
[目的]阐明药用植物了哥王Wikstroemia indica的叶绿体基因组结构特点及系统进化地位，为了哥王的资源保护和可持续利用提供科学依据。[方法]采用Illumina测序平台进行了哥王叶绿体基因组测序，并通过生物信息技术和软件进行序列拼接、注释以及比对和系统进化分析。[结果]了哥王叶绿体基因组全长为 149 864 bp，由 86 347 bp的大单拷贝区(LSC)、10 601 bp的小单拷贝区(SSC)以及穿插在它们之间均为 26 458 bp的一对反向重复区(IR)构成，具有环状双链四分体结构，包含 124个基因。在了哥王叶绿体基因组中共找到 64种 24 180 个密码子，其中 30种为高频使用密码子，高频使用密码子中又有 29种是以A/T结尾;搜索到 93个简单重复序列(SSR)，其中单核苷酸重复居多(72个)，且以A或T及两者组合形成的基序为优势基序。了哥王与近缘植物的叶绿体基因组IR边界存在较为明显的变异。序列比较和系统进化树显示了哥王与同属细轴荛花W。nutans具有最高的序列同源性。[结论]了哥王叶绿体基因组具有植物叶绿体基因组的典型结构，有密码子使用偏好性，含多态性较为丰富的SSR，且与细轴荛花的亲缘关系最近。图 5表2 参24
Analysis on chloroplast genome of Wikstroemia indica
[Objective]This study is aimed to clarify the structure traits of chloroplast genome and phylogenetic status of medicinal plant Wikstroemia indica,providing a scientific basis for the resource protection and sustainable utilization of W.indica.[Method]An Illumina high-throughput sequencing platform was employed to acquire the chloroplast genome sequence which was then assembled,annotated,compared and analyzed using bioinformatics technologies and software.[Result]The chloroplast genome of W.indica was an annular quadripartite molecule with a length of 149 864 bp and composed of a large single copy(LSC,86 347 bp),a small single copy(SSC,10 601 bp)and a couple of inverted repeat(IR,26 458 bp)and 124 genes were annotated in the chloroplast genome.In the chloroplast genome there were a total of 24 180 codon,which were divided into 64 types of which 30 types of codon were used frequently and 29 of them ended with A/T.Altogether 93 chloroplast simple sequence repeat(SSR)were identified from the chloroplast genome with Mononucleotide being the predominate type taking up a number of 72 and the motifs formed by A/T contributing the most and obvious variations were observed in IR boundary between W.indica and closely related plants whereas sequence alignment and phylogenetic tree revealed that W.indica shared high sequence identity with W.nutans.[Conclusion]The chloroplast genome of W.indica exhibited typical structure of plant chloroplast genome,and possessed codon preference and several SSRs with rich polymorphism.Additionally,the chloroplast genome of W.indicashowed the closest similarity to W.nutans.[Ch,5 fig.2 tab.24 ref.]

Wikstroemia indicachloroplast genomecodon preferencesimple sequence repeatsequence alignmentphylogenetic relationship

吴民华、叶晓霞、谭靖怡、梁秋婷、吴子健、黄琼林

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广东医科大学基础医学院,广东湛江 524023

广东医科大学药学院,广东湛江 524023

广东医科大学第一临床医学院,广东湛江 524023

了哥王 叶绿体基因组 密码子偏好性 简单重复序列 序列比对 系统进化关系

广东省基础与应用基础研究基金广东省大学生创新创业训练计划广东医科大学大学生创新创业训练计划广东医科大学大学生创新创业训练计划

2018A030310116S202310571113GDMU2022113GDMU2022125

2024

10.11833/j.issn.2095-0756.20230412

浙江农林大学学报
浙江农林大学

浙江农林大学学报

CSTPCD北大核心
影响因子：0.929
ISSN：2095-0756
年,卷(期)：2024.41(2)
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