The complete plastid genome and nuclear ribosomal transcription unit sequences of Spiraea prunifolia f. simpliciflora (Rosaceae)

IF 0.8 Q4 PLANT SCIENCES KOREAN JOURNAL OF PLANT TAXONOMY Pub Date : 2023-03-31 DOI:10.11110/kjpt.2023.53.1.32
Jeongjin Choi, Wonhee Kim, J. Park, Jong-Soo Kang, Tae-Jin Yang
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Abstract

Spiraea prunifolia f. simpliciflora Nakai is a perennial shrub widely used for horticultural and medicinal purposes. We simultaneously obtained the complete plastid genome (plastome) and nuclear ribosomal gene transcription units, 45S nuclear ribosomal DNA (nrDNA) and 5S nrDNA of S. prunifolia f. simpliciflora, using Illumina short-read data. The plastome is 155,984 bp in length with a canonical quadripartite structure consisting of 84,417 bp of a large single-copy region, 18,887 bp of a short single-copy region, and 26,340 bp of two inverted repeat regions. Overall, a total of 113 genes (79 protein-coding genes, 30 tRNAs, and four rRNAs) were annotated in the plastome. The 45S nrDNA transcription unit is 5,848 bp in length: 1,809 bp, 161 bp, and 3,397 bp for 18S, 5.8S, and 26S, respectively, and 261 bp and 220 bp for internal transcribed spacer (ITS) 1 and ITS 2 regions, respectively. The 5S nrDNA unit is 512 bp, including 121 bp of 5S rRNA and 391 bp of intergenic spacer regions. Phylogenetic analyses showed that the genus Spiraea was monophyletic and sister to the clade of Sibiraea angustata, Petrophytum caespitosum and Kelseya uniflora. Within the genus Spiraea, the sections Calospira and Spiraea were monophyletic, but the sect. Glomerati was nested within the sect. Chamaedryon. In the sect. Glomerati, S. prunifolia f. simpliciflora formed a subclade with S. media, and the subclade was sister to S. thunbergii and S. mongolica. The close relationship between S. prunifolia f. simpliciflora and S. media was also supported by the nrDNA phylogeny, indicating that the plastome and nrDNA sequences assembled in this study belong to the genus Spiraea. The newly reported complete plastome and nrDNA transcription unit sequences of S. prunifolia f. simpliciflora provide useful information for further phylogenetic and evolutionary studies of the genus Spiraea, as well as the family Rosaceae.
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单叶绣线菊(蔷薇科)质体全基因组和核糖体转录单位序列
毛绣线菊是一种多年生灌木,广泛用于园艺和药用。利用Illumina短读数据,同时获得了单叶李的完整质体基因组(质体)和核糖体基因转录单位,45S核糖体DNA (nrDNA)和5S nrDNA。质体全长155,984 bp,具有典型的四分体结构,由84,417 bp的大单拷贝区、18,887 bp的短单拷贝区和26,340 bp的两个反向重复区组成。总体而言,在质体中总共注释了113个基因(79个蛋白质编码基因,30个trna和4个rrna)。45S nrDNA转录单元长度为5848 bp: 18S、5.8S和26S分别为1809 bp、161 bp和3397 bp, ITS 1和ITS 2分别为261 bp和220 bp。5S nrDNA单元长度为512 bp,其中5S rRNA为121 bp,基因间间隔区为391 bp。系统发育分析表明,绣线菊属是单系植物,是Sibiraea angustata、Petrophytum caespitosum和Kelseya uniflora分支的姊妹植物。在绣线菊属中,绣线菊属和带线菊属为单系,而绣线菊属则嵌套在变色龙属中。在肾球组中,单叶紫杉树与中叶紫杉树形成一个亚枝,其姊妹枝为黄花紫杉树和蒙古紫杉树。单叶绣线菊与媒介绣线菊的亲缘关系也得到了nrDNA系统发育的支持,表明本研究组装的质体和nrDNA序列均属于绣线菊属。新报道的绣线菊的完整体组和nrDNA转录单位序列为进一步研究绣线菊属和蔷薇科的系统发育和进化提供了有用的信息。
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来源期刊
KOREAN JOURNAL OF PLANT TAXONOMY
KOREAN JOURNAL OF PLANT TAXONOMY Agricultural and Biological Sciences-Plant Science
CiteScore
1.50
自引率
40.00%
发文量
23
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