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园艺学报 ›› 2022, Vol. 49 ›› Issue (3): 641-654.doi: 10.16420/j.issn.0513-353x.2020-1021

• 研究报告 • 上一篇    下一篇

陕甘花楸叶绿体基因组及其与爪瓣花楸的系统关系

汤晨茜, 仇志欣, 檀超, 钱羽铭, 陈昕*()   

  1. 南京林业大学生物与环境学院,南方现代林业协同创新中心,南京 210037
  • 收稿日期:2021-04-02 修回日期:2021-12-14 出版日期:2022-03-25 发布日期:2022-03-25
  • 通讯作者: 陈昕 E-mail:chenxinzhou@hotmail.com
  • 基金资助:
    江苏省自然科学基金项目(BK20141472);江苏高校优势学科建设工程项目(PAPD)

Sorbus koehneana(Rosaceae):Its Complete Chloroplast Genome and Phylogenetic Relationship with S. unguiculata

TANG Chenqian, QIU Zhixin, TAN Chao, QIAN Yuming, CHEN Xin*()   

  1. Co-Innovation Center for Sustainable Forestry in Southern China,College of Biology and the Environment,Nanjing Forestry University,Nanjing 210037,China
  • Received:2021-04-02 Revised:2021-12-14 Online:2022-03-25 Published:2022-03-25
  • Contact: CHEN Xin E-mail:chenxinzhou@hotmail.com

摘要:

采用高通量测序技术分析了陕甘花楸(Sorbus koehneana)的叶绿体全基因组,并探讨其与爪瓣花楸(S. unguiculata)的关系。陕甘花楸叶绿体基因组全长159 873 bp,GC含量为36.60%,呈典型的四分体结构,包含1个小单拷贝区(SSC,19 218 bp)、1个大单拷贝区(LSC,87 899 bp)和1对反向重复序列(IRa和IRb,26 378 bp);共注释到108个基因,包括76个蛋白编码基因,4个rRNA基因,28个tRNA基因;检测到47个简单重复序列(SSR)和48个分散重复序列(INE)。花楸属植物叶绿体基因组在大小、基因类型、密码子、内含子和GC含量等方面高度保守,但不同的重复序列和位于非编码区的12个变异热点区域可用作后续物种遗传多样性和亲缘关系研究。系统发育分析结果显示陕甘花楸位于花楸属复叶亚属,与爪瓣花楸和钝齿花楸(S. helenae)亲缘关系较近;不支持将爪瓣花楸作为陕甘花楸的异名处理,建议恢复爪瓣花楸物种名称。

关键词: 花楸, 叶绿体基因组, 基因组比较, 系统演化分析

Abstract:

The complete chloroplast(cp)genome of Sorbus koehneana and its phylogenetic relationship with S. unguiculata were analyzed. The complete cp genome of S. koehneana is 159 873 bp in size with 36.60% GC content. It has a typical quadripartite structure including a small single copy(SSC)region of 19 218 bp,a large single copy(LSC)region of 87 899 bp and a pair of inverted repeat regions (IRs)of 26 378 bp. The cp genome encodes 108 genes,comprising 76 protein-coding genes,four rRNA genes and 28 tRNA genes. Additionally,47 simple sequence repeats(SSRs)and 48 interspersed nuclear elements(INEs)were identified. In Sorbus,cp genome is highly conserved in length,gene type,codon number,intron number and GC content. However,the different sequence repeats and 12 highly variable regions located in intergenic spacers may be used for population genetic and phylogenetic studies in future. Phylogenetic analyses revealed that S. koehneana,S. unguiculata and S. helenae are in the same lineage nested within Sorbus subg. Sorbus. However,S. unguiculata is sister to S. helenae instead of S. koehneana. So the treatment of S. unguiculata as a synonym of S. koehneana is not supported and the name S. unguiculata is proposed to be reinstated here.

Key words: Sorbus, chloroplast genome, genomic comparison, phylogenetic analysis

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