林业与生态科学2025，Vol.40Issue(1)：83-92,10.DOI:10.13320/j.cnki.hjfor.2025.0010
药用植物两面针叶绿体基因组特征及系统进化分析
Analysis of chloroplast genome structure and phylogenetic evolution of medicinal plant Zanthoxylum nitidum
摘要
Abstract
To clarify the structure and phylogenetic relationship of chloroplast genome of Zanthoxylum nitidum,the genetic diversity,molecular breeding and wild germplasm exploi-tation of Zanthoxylum were studied.With the leaves of Z.nitidum as materials,total DNA was extracted by modified CT AB method and sequenced at high-throughput using BGISeq-500 platform.The whole chloroplast genome was assembled and annotated by SPAdes v3.13.0 software and GeSeq software,respectively.The phylogenetic relationships were an-alyzed by ML and BI method.Comparative genomics studies,including structural character-istics,repeated sequences,boundary contraction and expansion,and sequence variation anal-ysis of chloroplast genome were also conducted by bioinformatics methods.The results showed that chloroplast genome was 157 304 bp in length,including an 84 368 bp large sin-gle copy(LSC),a small single copy(SSC)17 634 bp and two inverted repeat region(IR)27 651 bp;The total GC content of chloroplast genome was 38.5％,which encoded 132 genes,including 87 protein-coding genes,37 tRNA genes and 8 rRNA genes.There were 32 codons in the chloroplast genome with RSCU＞1,of which the codons ending in A/U account for 90.6％,showing strong A/U base preference.Comparative genomic analysis showed that the IR boundaries of Zanthoxylum were highly conserved,and there were 8 re-gions with high nucleotide diversity.A total of 188 simple repeats(SSR)were detected,most of which were single nucleotide repeats.The phylogenetic analysis showed that Zan-thoxylum was a monophyletic group,and the relationship between Z.nitidum and Z.piper-itum was the closest.Chloroplast genome data was an ideal marker for the phylogenetic anal-ysis of Zanthoxylum,which enriched the genetic information of Zanthoxylum species.关键词
叶绿体基因组/系统进化/种质资源/分子标记/两面针Key words
chloroplast genome/systematic evolution/germplasm resources/molecular mark-er/Zanthoxylum nitidum分类
生物科学引用本文复制引用
刘涵,孙冲,肖佳林,黄勤琴,刘华敏,黄威,黄姗,刘霞..药用植物两面针叶绿体基因组特征及系统进化分析[J].林业与生态科学,2025,40(1):83-92,10.基金项目
国家自然科学基金项目(31901324) （31901324）
重庆市教委青年项目(KJQN202201337 （）
KJQN202201332 （）
KJQN202101320 （）
KJQN201801344) （）
重庆市博士后特别资助项目(2021XM2010). （2021XM2010）
