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
{"title":"The complete plastid genome and nuclear ribosomal transcription unit sequences of Spiraea prunifolia f. simpliciflora (Rosaceae)","authors":"Jeongjin Choi, Wonhee Kim, J. Park, Jong-Soo Kang, Tae-Jin Yang","doi":"10.11110/kjpt.2023.53.1.32","DOIUrl":null,"url":null,"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.","PeriodicalId":52232,"journal":{"name":"KOREAN JOURNAL OF PLANT TAXONOMY","volume":null,"pages":null},"PeriodicalIF":0.8000,"publicationDate":"2023-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"KOREAN JOURNAL OF PLANT TAXONOMY","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.11110/kjpt.2023.53.1.32","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q4","JCRName":"PLANT SCIENCES","Score":null,"Total":0}
引用次数: 0

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.
查看原文
分享 分享
微信好友 朋友圈 QQ好友 复制链接
本刊更多论文
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。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 去求助
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
期刊最新文献
The complete chloroplast genome sequence of <i>Rhododendron caucasicum</i> (Ericaceae) Current status of whole-genome sequences of Korean angiosperms Comparative morphological analysis reveals a new record of <i>Boehmeria nakashimae</i> (Urticaceae) in Korea <i>Ipomoea heptaphylla</i> and <i>Murdannia nudiflora</i>: New records for the flora of Korea The complete chloroplast genome of <i>Scrophularia kakudensis</i> and a comparative analysis of <i>S. kakudensis</i> and <i>S. cephalantha</i>
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
0
微信
客服QQ
Book学术公众号 扫码关注我们
反馈
×
意见反馈
请填写您的意见或建议
请填写您的手机或邮箱
已复制链接
已复制链接
快去分享给好友吧!
我知道了
×
扫码分享
扫码分享
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术
文献互助 智能选刊 最新文献 互助须知 联系我们:info@booksci.cn
Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。
Copyright © 2023 Book学术 All rights reserved.
ghs 京公网安备 11010802042870号 京ICP备2023020795号-1