酸模叶蓼叶绿体基因组特征及系统发育分析

Analyses on chloroplast genomes characteristiscs and phylogeny of Persicaria lapathifolia

为探究酸模叶蓼(Persicaria lapathifolia)的叶绿体基因组特征及其系统位置,本研究采用Illumina平台对酸模叶蓼的叶绿体全基因组进行测序。结果表明,酸模叶蓼叶绿体基因组由4部分组成,总长度为159 052 bp,其中,大单拷贝区(LSC)长度为83 621 bp,小单拷贝区(SSC)长度为13 149 bp, 2个反向重复区长度均为31 141 bp。基因组序列总的鸟嘌呤(G)和胞嘧啶(C)含量为38%,共注释得到128个独特基因,包含83个蛋白质编码基因、8个rRNA基因和37个tRNA基因。酸模叶蓼叶绿体基因组相对同义密码子使用度大于1.00的密码子共有32个,其中,有29个以A/U结尾,有3个以G结尾。在酸模叶蓼叶绿体基因组中共检测209个符合条件的SSR位点,以单核苷酸重复占绝对优势,主要是A/T碱基。系统发育分析表明,酸模叶蓼与香蓼(Persicaria viscosa)的亲缘关系最近。本研究可为蓼科(Polygonaceae)叶绿体基因组及系统发育分析提供基础参考资料。

To explore the structural features of Persicaria lapathifolia chloroplast genome and its systematic position,this study used Illumina platform to sequence the whole chloroplast genomes of Persicaria lapathifolia.The results show that the length of chloroplast genomes of Persicaria lapathifolia is 159052 bp,which is composed of four regions.The length of large single copy region is 83621 bp,small single copy region is 13149 bp,and the lengths of two inverted repeats regions are both 31141bp.The total guanine(G)and cytosine(C)content is 38%.A total of 128 unique genes are annotated,including 83 protein coding genes,8 rRNA genes and 37 tRNA genes.There are 32 codons with the relative synonymous codon usage higher than 1.00 in chloroplast genomes of Persicaria lapathifolia,in which,29 codons are ended with A/U,and 3 codons are ended with G.SSR site analysis reveals that the chloroplast genomes sequence contains 209 SSR loci in total,The SSRs are mononucleotides,especially for A/T.Phylogenetic analysis shows that Persicaria lapathifolia exhibits the closest genetic relationshipwith Persicaria viscosa.This study can provide basic reference data for the chloroplast genome and systematics analyses of Polygonaceae.