Plastome phylogenomics, biogeography, and clade diversification of Paris (Melanthiaceae)
Ji, Yunheng1,2; Yang, Lifang1; Chase, Mark W.3; Liu, Changkun1; Yang, Zhenyan1; Yang, Jin1; Yang, Jun-Bo4; Yi, Ting-Shuang4
Corresponding AuthorJi, Yunheng(jiyh@mail.kib.ac.cn)
2019-12-05
Source PublicationBMC PLANT BIOLOGY
ISSN1471-2229
Volume19Issue:1Pages:14
AbstractBackground: 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.
KeywordPlastid phylogenomics Biogeography Radiative diversification Cytonuclear discordance Large genome size Parideae Paris Melanthiaceae Trilliaceae
DOI10.1186/s12870-019-2147-6
Indexed BySCI ; SCI
Language英语
WOS Research AreaPlant Sciences
WOS SubjectPlant Sciences
WOS IDWOS:000505233200003
Citation statistics
Cited Times:1[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.kib.ac.cn/handle/151853/70673
Collection中国科学院东亚植物多样性与生物地理学重点实验室
Corresponding AuthorJi, Yunheng
Affiliation1.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
Recommended Citation
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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