Plastid phylogenomics and biogeographic analysis support a trans-Tethyan origin and rapid early radiation of Cornales in the Mid-Cretaceous

doi:10.1016/j.ympev.2019.106601

	Plastid phylogenomics and biogeographic analysis support a trans-Tethyan origin and rapid early radiation of Cornales in the Mid-Cretaceous
	Fu, Chao-Nan 1,2,3; Mo, Zhi-Qiong 1,3; Yang, Jun-Bo 2; Ge, Xue-Jun 4; Li, De-Zhu1,2,3 ; Xiang, Qiu-Yun (Jenny)5; Gao, Lian-Ming1
通讯作者	Li, De-Zhu(dzl@mail.kib.ac.cn) ; Xiang, Qiu-Yun (Jenny)(qyxiang@ncsu.edu) ; Gao, Lian-Ming(gaolm@mail.kib.ac.cn)
	2019-11-01
发表期刊	MOLECULAR PHYLOGENETICS AND EVOLUTION
ISSN	1055-7903
卷号	140 页码:16
摘要	The Cornales is a relatively small but morphologically diverse order in the basal position of the Asterids Glade. Previous study hypothesized that the order might have undergone ancient rapid radiation during the Cretaceous when major angiosperm lineages were established. We conducted the phylogenomic analysis of Cornales using 81 plastid genome sequences with 67 newly generated in this study to test the hypothesis. This sampling represents all the families and 31 out of 48 genera in the order. Phylogenetic analyses were conducted using different datasets to examine the effects of different coding positions and character coding methods. We further conducted divergence time, diversification rate, and biogeographic analyses to understand the early evolutionary history of Cornales in space and time. Our phylogenetic analyses of four datasets (the amino acid characters, the 1st and 2nd codon positions of protein coding genes, nucleotide characters with degenerated coding method, and noncoding regions) resulted in a robust phylogeny congruent with results of previous studies, showing (((Cornaceae-Alangiaceae)-(Curtisiaceae-Grubbiaceae))-(((Nyssaceae-Davidiaceae)-Mastixiaceae)-((Hydrostachyaceae-(Hydrangeaceae-Loasaceae)))). Phylogenetic relationships within families were also well resolved. Conflicts in the placement of Hydrostachyaceae were found from analyses of two datasets, the nucleotide characters of all codon position and the 3rd codon positions, where the family was united with Loasaceae, but not strongly supported. Results from divergence time analyses suggested a mid-Cretaceous origin of Cornales followed by rapid early diversification into major clades/families within 10 million years. The early diversification of Cornales may have been facilitated by divergence in habitat and morphology following geographic dispersals. The ancestral distribution of the order was inferred as a widespread range covering Asia, Europe, North America, and Africa when including fossils in the analyses, suggesting an origin of the order likely along the Tethys Seaway where the areas were connected in the mid-Cretaceous. Inferred geographic origins of each family differed to some extent between analyses including fossils vs excluding fossils. In the analysis with extant and fossil species, the origins of the African Hydrostachyaceae and Grubbiaceae-Curtisiaceae Glade were inferred to have involved two independent events, an intercontinental dispersal from the northern hemisphere to Africa and an intercontinental vicariance between the northern hemisphere and Africa, respectively. Other families were inferred to have evolved in the northern hemisphere with subsequent intercontinental dispersal(s) to other areas including to Central and South America, during their subsequent diversification. Net diversification rate analysis based on treePL dated phylogeny using MEDUSA detected a nearly 5-fold decrease in the African endemic Curtisiaceae-Grubbiaceae (CuG) Glade and an increase of rate in the Hydrangeaceae-Loasaceae (HL) Glade. Within HL, a decrease in the Fendlera-Jamesia Glade and an increase in the Philadeiphus Glade were also detected. The findings are also consistent with the level of present species diversity in these lineages. Our study demonstrated the value of plastid genome in phylogenomic study, but posed an old challenge of biogeographic study with fossil data and raised caution for the synonymous substitution sites of plastid genome in phylogenomics studies.
关键词	Biogeography Character coding Cornales Plastid genome Phylogenomics
DOI	10.1016/j.ympev.2019.106601
收录类别	SCI ; SCI
语种	英语
WOS记录号	WOS:000489688500007
引用统计	被引频次：40[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.kib.ac.cn/handle/151853/69962
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	Li, De-Zhu; Xiang, Qiu-Yun (Jenny); Gao, Lian-Ming
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, Germplasm Bank Wild Species, Kunming 650201, Yunnan, Peoples R China 3.Univ Chinese Acad Sci, Kunming Coll Life Sci, Kunming 650201, Yunnan, Peoples R China 4.Chinese Acad Sci, South China Bot Garden, Key Lab Plant Resources Conservat & Sustainable U, Guangzhou 510650, Guangdong, Peoples R China 5.North Carolina State Univ, Dept Plant & Microbial Biol, Raleigh, NC 27695 USA
推荐引用方式 GB/T 7714	Fu, Chao-Nan,Mo, Zhi-Qiong,Yang, Jun-Bo,et al. Plastid phylogenomics and biogeographic analysis support a trans-Tethyan origin and rapid early radiation of Cornales in the Mid-Cretaceous[J]. MOLECULAR PHYLOGENETICS AND EVOLUTION,2019,140:16.
APA	Fu, Chao-Nan.,Mo, Zhi-Qiong.,Yang, Jun-Bo.,Ge, Xue-Jun.,Li, De-Zhu.,...&Gao, Lian-Ming.(2019).Plastid phylogenomics and biogeographic analysis support a trans-Tethyan origin and rapid early radiation of Cornales in the Mid-Cretaceous.MOLECULAR PHYLOGENETICS AND EVOLUTION,140,16.
MLA	Fu, Chao-Nan,et al."Plastid phylogenomics and biogeographic analysis support a trans-Tethyan origin and rapid early radiation of Cornales in the Mid-Cretaceous".MOLECULAR PHYLOGENETICS AND EVOLUTION 140(2019):16.

条目包含的文件
文件名称/大小	文献类型	版本类型	开放类型	使用许可
Fu-2019-Plastid phyl（3381KB）	期刊论文	出版稿	开放获取	CC BY-NC-SA	浏览下载