摘要
通过高通量测序技术获取白鲜(Dictamnus dasycarpus Turcz.)叶绿体全基因组序列,并采用生物信息学方法对其结构特征和系统发育关系进行了分析。结果显示,白鲜叶绿体基因组具有典型的环状四分体结构,总长度为157 139 bp,大单拷贝区和小单拷贝区长度分别为84 478 bp和18 587 bp,一对反向重复序列长度为27 037 bp,总GC含量为38.5%。共注释到132个基因,包括87个蛋白编码基因(PCGs)、8个rRNA和37个tRNA基因。计算相对同义密码子使用频率(RSCU),发现编码最多的密码子是亮氨酸(Leu/L),编码最少的密码子是半胱氨酸(Cys/C),RSCU值大于1的密码子有32个。白鲜叶绿体基因组共包含61个简单重复序列。通过对芸香科8种植物的叶绿体基因组结构进行比较,发现白鲜属与其他属的叶绿体基因组结构基本一致,并未发生重排和倒位现象。系统进化树分析结果表明,白鲜与臭常山(Orixa japonica Thunb.)的亲缘关系最近。
The whole genome sequence of Dictamnus dasycarpus Turcz.chloroplasts was obtained by highthroughput sequencing,and its structural features and phylogenetic relationships were analyzed by bioinformatics.Results showed that the chloroplast genome had a typical circular tetrameric structure with a total length of 157139 bp,a large and small single-copy region of 84478 bp and 18587 bp,respectively,a pair of inverted repeat sequences of 27037 bp,and a total GC content of 38.5%.In total,132 genes were annotated,including 87 protein-coding genes(PCGs),eight ribosomal RNA(rRNA)genes,and 37 transfer RNA(tRNA)genes.The frequency of relative synonymous codon use(RSCU)was calculated,showing that the most encoded codon was leucine(Leu/L)and the least encoded codon was cysteine(Cys/C),with 32 codons with RSCU values greater than 1.The D.dasycarpus chloroplast genome contained a total of 61 simple repetitive sequences.Compared with eight species of Rutaceae,the chloroplast genome structure was generally consistent between Dictamnus and other genera,with no rearrangements or inversions.Phylogenetic analysis showed that D.dasycarpus was most closely related to Orixa japonica Thunb.
作者
王震
张占平
孔令阳
刘美琦
陆佳欣
任伟超
刘秀波
马伟
Wang Zhen;Zhang Zhan-Ping;Kong Ling-Yang;Liu Mei-Qi;Lu Jia-Xin;Ren Wei-Chao;Liu Xiu-Bo;Ma Wei(College of Pharmaceutical,Heilongjiang University of Chinese Medicine,Harbin 150040,China;College of Jiamusi,Heilongjiang University of Chinese Medicine,Jiamusi,Heilongjiang 154007,China)
出处
《植物科学学报》
CAS
CSCD
北大核心
2023年第2期139-148,共10页
Plant Science Journal
基金
“十四五”国家重点研发计划(2021YFD1600901)
名贵中药资源可持续利用能力建设项目(2060302)
中药制药过程新技术国家重点实验室开放基金(SKL2020M0302)。
关键词
白鲜
叶绿体基因组
芸香科
密码子
系统发育
Dictamnus dasycarpus
Chloroplast genome
Rutaceae
Codon
Phylogeny
