同域分布的3种木蓼属植物叶绿体基因组比较
收稿日期: 2022-04-08
录用日期: 2022-09-19
网络出版日期: 2022-09-27
基金资助
国家自然科学基金(31760102);新疆维吾尔自治区重点实验室开放课题(2020D04033)
Comparative Analyses on the Chloroplast Genome of Three Sympatric Atraphaxis Species
Received date: 2022-04-08
Accepted date: 2022-09-19
Online published: 2022-09-27
刺木蓼(Atraphaxis spinosa)、额河木蓼(A. jrtyschensis)和细枝木蓼(A. decipiens)是同域分布在我国新疆北部的3种木蓼属物种。通过二代高通量测序, 对叶绿体基因组进行组装和注释, 比较3个物种的叶绿体基因组差异并进行系统发育分析。结果表明, 木蓼属3个物种的叶绿体全基因组大小为164 106-164 216 bp, 与其它绿色植物类似, 由1个大单拷贝区(LSC)、1个小单拷贝区(SSC)及介于二者之间的2个反向重复区(IRa/IRb)组成。在刺木蓼、额河木蓼和细枝木蓼中检测到48-49个串联重复序列及59-63个简单重复序列(SSR)。3个物种的核苷酸多样性平均值为0.000 96, Ka/Ks平均值为0.030 3, 遗传距离平均值为0.001 0。通过对3个物种的叶绿体基因组进行比较, 发现编码区比非编码区更保守。系统发育分析结果显示3个物种的亲缘关系较近。该研究基于叶绿体基因组对木蓼属物种的亲缘关系进行分析, 揭示了3个同域分布的物种之间的亲缘关系以及木蓼属在蓼科中的系统位置。研究结果可为木蓼属的分类学、系统学和生物地理学研究提供参考。
褚振州, 古丽巴哈尔·依斯拉木, 屈泽众, 田新民 . 同域分布的3种木蓼属植物叶绿体基因组比较[J]. 植物学报, 2023 , 58(3) : 417 -432 . DOI: 10.11983/CBB22065
Atraphaxis spinosa, A. jrtyschensis, and A. decipiens are three species with sympatric distribution in northern Xinjiang, China. In this study, their chloroplast genomes were assembled and annotated with the second-generation high-throughput sequencing technology (NGS). We compared the nucleotide sequences of the chloroplast (cp) genomes of these three Atraphaxis species and carried out the phylogenetic analysis. The results showed that the cp genomes of the three species ranged from 164 106 bp to 164 216 bp, similar to that of other green plants, all including a pair of inverted repeats separated by a large single-copy and a small single-copy region. We detected a total of 48-49 tandem repeats and 59-63 simple sequence repeats (SSRs) from the three cp genomes. The mean value of nucleotide diversity of the three species was 0.000 96, the average score of Ka/Ks ratio was 0.030 3, and the mean genetic distance value was 0.001 0. A comparative analysis showed that the coding regions were more conserved than the non-coding regions. The phylogenetic analysis showed that the three species were closely related. This study reveals the phylogenetic relationships among the three sympatric distribution species of Atraphaxis based on complete chloroplast genomes, and the phylogenetic position of Atraphaxis in the family Polygonaceae. This work may provide a reference for taxonomic, systematic and biogeographical studies of Atraphaxis.
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