Resolving robust phylogenetic relationships of core Brassicaceae using genome skimming data

doi:10.1111/jse.12666

KIB OpenIR

	Resolving robust phylogenetic relationships of core Brassicaceae using genome skimming data
	Liu,Liang-Min ; Du,Xin-Yu ; Guo,Cen ; Li,De-Zhu
	2021
发表期刊	JOURNAL OF SYSTEMATICS AND EVOLUTION
ISSN	1674-4918
卷号	59 期号:3 页码:442-453
摘要	The Brassicaceae is an economically and scientifically important family distributed globally, including oilseed rape and the model plant,Arabidopsis thaliana. Although growing molecular data have been used in phylogenetic studies, the relationships among major clades and tribes of Brassicaceae are still controversial. Here, we investigated the core Brassicaceae phylogenetics using 222 plastomes and 235 nrDNA cistrons, including 106 plastomes and 112 nrDNA cistrons assembled from newly sequenced genome skimming data of 112 taxa. The sampling covered 73 genera from 61.5% tribes and four unassigned genera and species. Three well supported lineages LI, LII, and LIII were revealed in our plastomic analyses, with LI sister to LII + LIII. In addition, the monophyly of the newly delimitated LII was strongly supported by three different partition strategies, concatenated methods under Bayesian and Maximum Likelihood analyses. LII comprised 13 tribes, including four tribes previously unassigned to any lineage, that is Biscutelleae as the earliest diverging clade and Cochlearieae as the sister to Megacarpaeeae + Anastaticeae. Within LII, the intertribal relationships were also well resolved, except that a conflicting position ofOrychophragmuswas detected among different datasets. In LIII,Shehbaziawas resolved as a member of Chorisproreae, but Chorisproreae, Dontostemoneae, and Euclidieae were all resolved as paraphyletic, which was also confirmed by nrDNA analyses. Moreover, the loss of therps16gene was detected as likely to be a synapomorphy of the tribes Arabideae and Alysseae. Overall, using genome skimming data, we resolved robust phylogenetic relationships of core Brassicaceae and shed new light on the complex evolutionary history of this family.
关键词	core Brassicaceae incongruence nuclear ribosome DNA plastid genome MOLECULAR PHYLOGENY CHLOROPLAST TRIBE BLOCKS CHORISPOREAE SYSTEMATICS ANNOTATION GENERATION EVOLUTION SELECTION
DOI	10.1111/jse.12666
WOS记录号	WOS:000566823000001
引用统计	被引频次：20[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/151853/73540
专题	中国科学院昆明植物研究所
作者单位	1.[Liu, Liang-Min 2.Du, Xin-Yu 3.Guo, Cen 4.Chinese Acad Sci, Kunming Inst Bot, Germplasm Bank Wild Species, Kunming 650201, Yunnan, Peoples R China 5.Univ Chinese Acad Sci, Kunming Coll Life Sci, Kunming 650201, Yunnan, Peoples R China
推荐引用方式 GB/T 7714	Liu,Liang-Min,Du,Xin-Yu,Guo,Cen,et al. Resolving robust phylogenetic relationships of core Brassicaceae using genome skimming data[J]. JOURNAL OF SYSTEMATICS AND EVOLUTION,2021,59(3):442-453.
APA	Liu,Liang-Min,Du,Xin-Yu,Guo,Cen,&Li,De-Zhu.(2021).Resolving robust phylogenetic relationships of core Brassicaceae using genome skimming data.JOURNAL OF SYSTEMATICS AND EVOLUTION,59(3),442-453.
MLA	Liu,Liang-Min,et al."Resolving robust phylogenetic relationships of core Brassicaceae using genome skimming data".JOURNAL OF SYSTEMATICS AND EVOLUTION 59.3(2021):442-453.