苋色藜叶绿体基因组的解析与系统发育分析

doi:10.11733/j.issn.1007-0435.2025.03.008

草地学报 ›› 2025, Vol. 33 ›› Issue (3): 739-747.DOI: 10.11733/j.issn.1007-0435.2025.03.008

• 研究论文 • 上一篇

苋色藜叶绿体基因组的解析与系统发育分析

孔卫青, 禚苏, 杨金宏

安康学院现代农业与生物科技学院/陕西省蚕桑重点实验室, 陕西安康 725000

收稿日期:2024-07-23 修回日期:2024-09-09 发布日期:2025-04-07
通讯作者: 杨金宏,E-mail:yangjinhong@aku.edu.cn
作者简介:孔卫青（1980-）,女,汉族,山东菏泽人,博士,研究员,主要从事植物病害与资源开发利用研究,E-mail：275455929@qq.com
基金资助:
陕西省重点研发计划项目（2020NY-138）;陕西省教育厅重点科研计划项目（20JS003）资助

Chloroplast Genome Characteristics and Phylogenetic Analysis of Chenopodium amaranticolor

KONG Wei-qing, ZHUO Su, YANG Jin-hong

School of Modern Agriculture &Biotechnology/Shaanxi key laboratory of sericulture, Ankang University, Ankang, Shaanxi Province 725000, China

Received:2024-07-23 Revised:2024-09-09 Published:2025-04-07

摘要/Abstract

摘要： 本研究对苋色藜（Chenopodium amaranticolor）的叶绿体基因组进行了高通量测序、组装和注释分析,比较了藜属植物叶绿体基因组的特征和系统发育关系,发现苋色藜叶绿体基因组长152 193 bp,GC含量37.25%,编码131个基因,其中蛋白质编码基因86个,偏好使用A/U结尾的密码子。共线性和滑动窗口分析藜属植物叶绿体基因组具有较高序列相似性,核苷酸多态性主要在LSC和SSC区的基因间隔区以及ndhF和ycf1基因内部；SSR以单碱基重复为主,主要组成碱基为A、T；散在重复序列主要为正向重复和回文重复；系统发育分析苋色藜与台湾藜（Chenopodium formosanum）的亲缘关系较近；计算基于核基因的苋色藜与藜麦（Chenopodium quinoa）的遗传距离大于叶绿体基因。本研究可为藜属植物遗传结构与多样性、特异基因挖掘以及系统发育等研究提供参考。

关键词: 苋色藜, 叶绿体基因组, 高通量测序, 系统发育

Abstract: This study conducted high-throughput sequencing, assembly, and annotation analysis of the chloroplast genome of Chenopodium amaranticolor. The analysis of features and phylogeny of Chenopodium chloroplast genome discovered that the chloroplast genome of C. amaranticolor was 152 193 bp in size with GC content of 37.25%, encoding a total of 131 genes, and 86 of them were protein coding genes, which preferred using codons ending in A/U. The collinearity and sliding window analysis showed that the chloroplast genomes of Chenopodium genus plants exhibited high sequence similarity, and the nucleotide polymorphism sites were mainly found in the intergenic regions of LSC and SSC regions, as well as within the ndhF and ycf1 genes. The SSRs type in Chenopodium plants chloroplast genomes were mainly single nucleotide repeats, and the main component base were A/T. The types of repetitive sequences were mostly forward repeats and palindrome repeats. The phylogenetic analysis showed that C. amaranticolor was closely related to C. formosanum. The genetic distance between C. amaranticolor and C. quinoa based on the nuclear genes is greater than that of chloroplast genes. The results of this study could provide references for further study on genetic structure and diversity, specific gene mining, and phylogenetic studies of C. spp.

Key words: Chenopodium amaranticolor, chloroplast genome, High-throughput sequencing, Phylogeny

中图分类号:

Q949.4

孔卫青, 禚苏, 杨金宏. 苋色藜叶绿体基因组的解析与系统发育分析[J]. 草地学报, 2025, 33(3): 739-747.

KONG Wei-qing, ZHUO Su, YANG Jin-hong. Chloroplast Genome Characteristics and Phylogenetic Analysis of Chenopodium amaranticolor[J]. Acta Agrestia Sinica, 2025, 33(3): 739-747.

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苋色藜叶绿体基因组的解析与系统发育分析

Chloroplast Genome Characteristics and Phylogenetic Analysis of Chenopodium amaranticolor

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