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陈琨,潘良浩,廖馨.短叶茳芏(Cyperus malaccensis subsp.monophyllus)叶绿体全基因组特征及其系统发育分析[J].广西科学院学报,2024,40(3):355-363. [点击复制]
- CHEN Kun,PAN Lianghao,LIAO Xin.Complete Chloroplast Genome Characteristics and Phylogenetic Analysis of Cyperus malaccensis subsp.monophyllus[J].Journal of Guangxi Academy of Sciences,2024,40(3):355-363. [点击复制]
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| 短叶茳芏(Cyperus malaccensis subsp.monophyllus)叶绿体全基因组特征及其系统发育分析 |
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陈琨1,2, 潘良浩1,2, 廖馨1,2
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| (1.广西科学院, 广西海洋科学院(广西红树林研究中心), 广西红树林保护与利用重点实验室, 广西北海 536000;2.自然资源部北部湾滨海湿地生态系统野外科学观测研究站, 广西北海 536015) |
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| 摘要: |
| 短叶茳芏(Cyperus malaccensis subsp.monophyllus)为我国东南至南方沿海分布面积较大的原生滨海盐沼草本植物，在保滩护岸和改良土壤等领域发挥重要作用。本研究利用Illumina高通量测序技术获取短叶茳芏叶绿体全基因组信息特征，并探究其基因组特征及系统发育关系。结果显示，短叶茳芏叶绿体全基因组全长186 314 bp，为典型的四分体结构；其中大单拷贝(LSC)区和小单拷贝(SSC)区分别为101 162和10 310 bp，反向重复(IR)区为37 421 bp，共注释叶绿体基因141个，包括94个蛋白编码基因、39个转运RNA基因和8个核糖体RNA基因。共鉴定出105个简单重复序列(Simple Sequence Repeat，SSR)位点和77个长重复序列，挖掘出183个单核苷酸多态性(Single Nucleotide Polymorphism，SNP)位点。系统发育分析表明，在莎草属(Cyperus)中，短叶茳芏、茳芏(C.malaccensis)与香附子(C.rotundus)亲缘关系最近。本研究为进一步探究莎草科(Cyperaceae)植物的系统发育关系及近缘物种的区分提供了参考依据。 |
| 关键词: 短叶茳芏 叶绿体基因组 高通量测序 特征分析 系统发育分析 |
| DOI：10.13657/j.cnki.gxkxyxb.20241108.013 |
| 投稿时间：2024-06-30修订日期：2024-08-19 |
| 基金项目:广西科技人才专项(桂科AD20159032)，广西红树林保护与利用重点实验室基金项目(GKLMC-22A07)和广西红树林研究中心基本科研业务费项目(2023GMRC-02)资助。 |
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| Complete Chloroplast Genome Characteristics and Phylogenetic Analysis of Cyperus malaccensis subsp.monophyllus |
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CHEN Kun1,2, PAN Lianghao1,2, LIAO Xin1,2
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| (1.Guangxi Key Laboratory of Mangrove Conservation and Utilization, Guangxi Academy of Marine Science (Guangxi Mangrove Research Center), Guangxi Academy of Sciences, Beihai, Guangxi, 536000, China;2.Observation and Research Station of Coastal Wetland Ecosystemin Beibu Gulf, Ministry of Natural Resources, Beihai, Guangxi, 536015, China) |
| Abstract: |
| Cyperus malaccensis subsp. monophyllus is a native coastal salt marsh herb with a large distribution area from the southeast to the south coast of China,which plays an important role in the fields of beach protection and soil improvement.In this study,Illumina high-throughput sequencing technology was used to obtain the whole genome information characteristics of the chloroplast of C.malaccensis subsp.monophyllus,and to explore its genomic characteristics and phylogenetic relationship.The results showed that the complete chloroplast genome of C.malaccensis subsp.monophyllus was 186 314 bp in length,which was a typical tetrad structure.The large single-copy region and the small single-copy region were 101 162 and 10 310 bp,respectively,and the inverted repeat region was 37 421 bp.A total of 141 chloroplast genes were annotated,including 94 protein-coding genes,39 transport RNA genes and 8 ribosomal RNA genes.A total of 105 Simple Sequence Repeat (SSR) sites and 77 long repeat sequences were identified,and 183 Single Nucleotide Polymorphism (SNP) sites were mined.Phylogenetic analyses showed that C.malaccensis subsp.monophyllus,C.malaccensis had the closest relationship with C.rotundus in Cyperus.This study provides a reference for further exploring the phylogenetic relationship of Cyperaceae plants and the differentiation of related species. |
| Key words: Cyperus malaccensis subsp.monophyllus chloroplast genome high-throughput sequencing characterization phylogenetic analysis |
