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Plastid phylogenomic insights into the evolution of the Caprifoliaceae s.l. (Dipsacales)
Wang, Hong-Xin; Liu, Huan1,2; Moore, Michael J.; Landrein, Sven4; Liu, Bing5,6; Zhu, Zhi-Xin; Wang, Hua-Feng
2020
发表期刊MOLECULAR PHYLOGENETICS AND EVOLUTION
ISSN1055-7903
卷号142
摘要The family Caprifoliaceae s.l. is an asterid angiosperm clade of ca. 960 species, most of which are distributed in temperate regions of the northern hemisphere. Recent studies show that the family comprises seven major clades: Linnaeoideae, Zabelia, Morinoideae, Dipsacoideae, Valerianoideae, Caprifolioideae, and Diervilloideae. However, its phylogeny at the subfamily or genus level remains controversial, and the backbone relationships among subfamilies are incompletely resolved. In this study, we utilized complete plastome sequencing to resolve the relationships among the subfamilies of the Caprifoliaceae s.l. and clarify several long-standing controversies. We generated and analyzed plastomes of 48 accessions of Caprifoliaceae s.l., representing 44 species, six subfamilies and one genus. Combined with available Caprifoliaceae s.l. plastomes on GenBank and 12 outgroups, we analyzed a final dataset of 68 accessions. Genome structure was strongly conserved in general, although the boundaries between the Inverted Repeat were found to have contracted across Caprifoliaceae s.l. to exclude rpl2, rps19, and ycf1, all or parts of which are typically present in the IR of most angiosperms. The ndhF gene was found to have been inverted in all plastomes of Adoxaceae. Phylogenomic analyses of 68 complete plastomes yielded a highly supported topology that strongly supported the monophyly of Zabelia and its sister relationship to Morinoideae. Moreover, a clade of Valerianoideae + Dipsacoideae was recovered as sister to a clade of Linnaeoideae + Zabelia + Morinoideae clade, and Heptacodium was sister to remaining Caprifolioideae. The Diervilloideae and Caprifolioideae were successively sister to all other Caprifoliaceae s.l. Major lineages of Caprifoliaceae s.l. were estimated to have diverged from the Upper Cretaceous to the Eocene (50-100 Ma), whereas within-genus diversification was dated to the Oligocene and later, concomitant with global cooling and drying. Our results demonstrate the power of plastid phylogenomics in improving estimates of phylogeny among genera and subfamilies, and provide new insights into plastome evolution across Caprifoliaceae s.l.
关键词Caprifoliaceae s.l. Dipsacales Plastome Phylogenetics
学科领域Biochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
DOI10.1016/j.ympev.2019.106641
收录类别SCI
语种英语
WOS关键词COMPLETE CHLOROPLAST GENOME ; INVERTED REPEAT ; TRACHELIUM-CAERULEUM ; TRIBE LINNAEEAE ; SEQUENCE ; DNA ; EXPANSION ; MITOCHONDRIAL ; CONTRACTION ; ANGIOSPERMS
WOS研究方向Biochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
WOS记录号WOS:000498650200004
出版者ACADEMIC PRESS INC ELSEVIER SCIENCE
文献子类Article
出版地SAN DIEGO
EISSN1095-9513
资助机构National Natural Scientific Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31660055, 31660074] ; Hainan University [kyqd1633, kydq(zr) 1840] ; China Scholarship CouncilChina Scholarship Council [201907565012] ; Shenzhen Municipal Government of China [JCYJ20150831201123287, JCYJ20160331150739027] ; Guangdong Provincial Key Laboratory of Genome Read and Write [2017B030301011] ; National Wild Plant Germplasm Resource Center ; Basic Research Program
作者邮箱wanghuafeng2012@foxmail.com
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被引频次:43[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.ibcas.ac.cn/handle/2S10CLM1/21966
专题系统与进化植物学国家重点实验室
作者单位1.Hainan Univ, Sch Life & Pharmaceut Sci, Key Lab Trop Biol Resources, Minist Educ, Haikou 570228, Hainan, Peoples R China
2.BGI Shenzhen, Beishan Ind Zone, Shenzhen 518083, Guangdong, Peoples R China
3.BGI Shenzhen, State Key Lab Agr Genom, Shenzhen 518083, Guangdong, Peoples R China
4.Moore, Michael J.] Oberlin Coll, Dept Biol, Oberlin, OH 44074 USA
5.Chinese Acad Sci, Xishuangbanna Trop Bot Garden, Menglun 666303, Peoples R China
6.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China
7.Chinese Acad Sci, Sino African Joint Res Ctr, Wuhan 430074, Hubei, Peoples R China
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Wang, Hong-Xin,Liu, Huan,Moore, Michael J.,et al. Plastid phylogenomic insights into the evolution of the Caprifoliaceae s.l. (Dipsacales)[J]. MOLECULAR PHYLOGENETICS AND EVOLUTION,2020,142.
APA Wang, Hong-Xin.,Liu, Huan.,Moore, Michael J..,Landrein, Sven.,Liu, Bing.,...&Wang, Hua-Feng.(2020).Plastid phylogenomic insights into the evolution of the Caprifoliaceae s.l. (Dipsacales).MOLECULAR PHYLOGENETICS AND EVOLUTION,142.
MLA Wang, Hong-Xin,et al."Plastid phylogenomic insights into the evolution of the Caprifoliaceae s.l. (Dipsacales)".MOLECULAR PHYLOGENETICS AND EVOLUTION 142(2020).
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