Plastome phylogenomics, biogeography, and clade diversification of Paris (Melanthiaceae)

doi:10.1186/s12870-019-2147-6

	Plastome phylogenomics, biogeography, and clade diversification of Paris (Melanthiaceae)
	Ji, Yunheng1,2 ; Yang, Lifang 1; Chase, Mark W.3; Liu, Changkun 1; Yang, Zhenyan 1; Yang, Jin 1; Yang, Jun-Bo 4; Yi, Ting-Shuang4
通讯作者	Ji, Yunheng(jiyh@mail.kib.ac.cn)
	2019-12-05
发表期刊	BMC PLANT BIOLOGY
ISSN	1471-2229
卷号	19 期号:1 页码:14
摘要	Background: Paris (Melanthiaceae) is an economically important but taxonomically difficult genus, which is unique in angiosperms because some species have extremely large nuclear genomes. Phylogenetic relationships within Paris have long been controversial. Based on complete plastomes and nuclear ribosomal DNA (nrDNA) sequences, this study aims to reconstruct a robust phylogenetic tree and explore historical biogeography and clade diversification in the genus. Results: All 29 species currently recognized in Paris were sampled. Whole plastomes and nrDNA sequences were generated by the genome skimming approach. Phylogenetic relationships were reconstructed using the maximum likelihood and Bayesian inference methods. Based on the phylogenetic framework and molecular dating, biogeographic scenarios and historical diversification of Paris were explored. Significant conflicts between plastid and nuclear datasets were identified, and the plastome tree is highly congruent with past interpretations of the morphology. Ancestral area reconstruction indicated that Paris may have originated in northeastern Asia and northern China, and has experienced multiple dispersal and vicariance events during its diversification. The rate of clade diversification has sharply accelerated since the Miocene/Pliocene boundary. Conclusions: Our results provide important insights for clarifying some of the long-standing taxonomic debates in Paris. Cytonuclear discordance may have been caused by ancient and recent hybridizations in the genus. The climatic and geological changes since the late Miocene, such as the intensification of Asian monsoon and the rapid uplift of Qinghai-Tibet Plateau, as well as the climatic fluctuations during the Pleistocene, played essential roles in driving range expansion and radiative diversification in Paris. Our findings challenge the theoretical prediction that large genome sizes may limit speciation.
关键词	Plastid phylogenomics Biogeography Radiative diversification Cytonuclear discordance Large genome size Parideae Paris Melanthiaceae Trilliaceae
DOI	10.1186/s12870-019-2147-6
收录类别	SCI ; SCI
语种	英语
WOS记录号	WOS:000505233200003
引用统计
文献类型	期刊论文
条目标识符	http://ir.kib.ac.cn/handle/151853/70673
专题	中国科学院东亚植物多样性与生物地理学重点实验室
通讯作者	Ji, Yunheng
作者单位	1.Chinese Acad Sci, Kunming Inst Bot, CAS Key Lab Plant Divers & Biogeog East Asia, Kunming 650201, Yunnan, Peoples R China 2.Chinese Acad Sci, Kunming Inst Bot, Yunnan Key Lab Integrat Conservat Plant Species E, Kunming 650201, Yunnan, Peoples R China 3.Royal Bot Gardens, Jodrell Lab, Richmond TW9 3DS, Surrey, England 4.Chinese Acad Sci, Kunming Inst Bot, Germplasm Bank Wild Species, Kunming 650201, Yunnan, Peoples R China
推荐引用方式 GB/T 7714	Ji, Yunheng,Yang, Lifang,Chase, Mark W.,et al. Plastome phylogenomics, biogeography, and clade diversification of Paris (Melanthiaceae)[J]. BMC PLANT BIOLOGY,2019,19(1):14.
APA	Ji, Yunheng.,Yang, Lifang.,Chase, Mark W..,Liu, Changkun.,Yang, Zhenyan.,...&Yi, Ting-Shuang.(2019).Plastome phylogenomics, biogeography, and clade diversification of Paris (Melanthiaceae).BMC PLANT BIOLOGY,19(1),14.
MLA	Ji, Yunheng,et al."Plastome phylogenomics, biogeography, and clade diversification of Paris (Melanthiaceae)".BMC PLANT BIOLOGY 19.1(2019):14.

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