湖北麦冬、川麦冬及杭麦冬叶绿体基因组分析

Chloroplast Genome Analysis of Liriope spicata var.prolifera,Ophiopogon japonicus in Sichuan and Zhejiang

目的:测定湖北麦冬、川麦冬及杭麦冬叶绿体基因组,分析其序列特征并完成特异性DNA条形码筛选。方法:通过高通量测序技术对湖北麦冬、川麦冬及杭麦冬叶绿体基因组进行测序、拼接及注释,利用生物信息学方法对叶绿体基因组结构特征及系统发育进行分析。结果:湖北麦冬的叶绿体基因组全长155998 bp,鸟嘌呤与胞嘧啶(GC)总量37.7%,成功注释出85个蛋白编码基因,37个转运RNA(tRNA)基因和8个核糖体RNA(rRNA)基因,检测到274个简单重复序列(SSR),编码亮氨酸的密码子数量最多,编码色氨酸的密码子数量最少;川麦冬叶绿体基因组全长156078 bp,GC总量37.8%,成功注释出85个蛋白编码基因,37个tRNA基因和8个rRNA基因,检测到265个SSR,编码亮氨酸的密码子数量最多,编码色氨酸的密码子数量最少;杭麦冬叶绿体基因组全长156207 bp,GC总量37.7%,成功注释出85个蛋白编码基因,37个tRNA基因和8个rRNA基因,检测到274个SSR,编码亮氨酸的密码子数量最多,编码色氨酸的密码子数量最少。结论:系统发育树显示,与川麦冬相比,湖北麦冬与杭麦冬的亲缘关系更近。湖北麦冬、杭麦冬及川麦冬非编码区变异程度均大于编码区,叶绿体基因组可作为山麦冬属及沿阶草属植物物种鉴定的超级条形码。

Objective:To determine the chloroplast genomes of Liriope spicata var.prolifera,Ophiopogon japonicus in Sichuan and Zhejiang,analyze their sequence characteristics and complete the screening of specific DNA barcodes.Method:The chloroplast genomes of L.spicata var.prolifera,O.japonicus in Sichuan and Zhejiang were sequenced,spliced and annotated through high-throughtput sequencing technology,and the structural characteristics and phylogenetic relationships of chloroplast genomes were analyzed by bioinformatics.Result:The total length of chloroplast genome of L.spicata var.prolifera was 155998 bp,the total content of guanine and cytosine(GC)was 37.7%,and 85 protein-coding genes,37 transfer RNA(tRNA)genes and 8 ribosomal RNA(rRNA)genes were successfully annotated,a total of 274 simple sequence repeats(SSRs)were detected,the number of codons encoding leucine was the most,while the number of codons encoding tryptophan was the least.The total length of chloroplast genome of O.japonicus in Sichuan province was 156078 bp,the total content of GC was 37.8%,and 85 protein-coding genes,37 tRNA genes and 8 rRNA genes were successfully annotated,a total of 265 SSRs were detected,the number of codons encoding leucine was the most,while the number of codons encoding tryptophan was the least.The total length of chloroplast genome of O.japonicus in Zhejiang province was 156207 bp,the total content of GC was 37.7%,and 85 protein-coding genes,37 tRNA genes and 8 rRNA genes were successfully annotated,a total of 274 SSRs were detected with the highest number of codons encoding leucine and the lowest number of codons encoding tryptophan.Conclusion:The phylogenetic trees show that compared with O.japonicus in Sichuan province,L.spicata var.prolifera is more closely related to O.japonicus in Zhejiang province.The variation of non-coding regions of L.spicata var.prolifera,O.japonicus in Zhejiang and Sichuan is greater than that in the coding region.The entire chloroplast genome can be used as a super barcode for identifying species of Ophiopogon and Liriope.