Phylogenomic relationships and species identification of the olive genus Olea (Oleaceae)

doi:10.1111/jse.12802

	Phylogenomic relationships and species identification of the olive genus Olea (Oleaceae)
	Dong, Wen-Pan ; Sun, Jia-Hui ; Liu, Yan-Lei ; Xu, Chao 2; Wang, Yi-Heng ; Suo, Zhi-Li ; Zhou, Shi-Liang ; Zhang, Zhi-Xiang ; Wen, Jun 3
	2022
发表期刊	JOURNAL OF SYSTEMATICS AND EVOLUTION
ISSN	1674-4918
卷号	60 期号:6 页码:1263-1280
摘要	The olive genus Olea includes c. 30-40 taxa in three subgenera (Olea, Tetrapilus, and Paniculatae) within the family Oleaceae. Historically, the Olea genus was classified into four groups that were overall well supported by reconstructed phylogenies, despite incomplete sampling of subgenus Tetrapilus and poor resolution within clades. These analyses also showed that the genus was not monophyletic. Reliable identification of Olea species is important for both their conservation and utilization of this economically important genus. In this study, we used phylogenomic data from genome skimming to resolve relationships within Olea and to identify molecular markers for species identification. We assembled the complete plastomes, and nrDNA of 26 individuals representing 13 species using next-generation sequencing and added 18 publicly available accessions of Olea. We also developed nuclear SNPs using the genome skimming data to infer the phylogenetic relationships of Olea. Large-scale phylogenomic analyses of 138 samples of tribe Oleeae supported the polyphyly of Olea, with Olea caudatilimba and Olea subgenus Tetrapilus not sharing their most recent common ancestor with the main Olea clade (subgenus Paniculatae and subgenus Olea). The interspecific phylogenetic resolution was poor owing to a possible rapid radiation. By comparing with the plastome data, we identified the markers ycf1b and psbE-petL as the best Olea-specific chloroplast DNA barcodes. Compared with universal barcodes, specific DNA barcodes and super-barcode exhibited higher discriminatory power. Our results demonstrated the power of phylogenomics to improve phylogenetic relationships of intricate groups and provided new insights into barcodes that allow for accurate identification of Olea species.
关键词	Olea phylogenomics specific DNA barcode species identification super-barcode
学科领域	Plant Sciences
DOI	10.1111/jse.12802
收录类别	SCI
语种	英语
WOS关键词	CHLOROPLAST ; GENOME ; DIVERSIFICATION ; PHYLOGENETICS ; PROSPECTS ; SELECTION ; NORONHIA ; PATTERNS ; BARCODES ; OAKS
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000686280700001
出版者	WILEY
文献子类	Article; Early Access
出版地	HOBOKEN
EISSN	1759-6831
资助机构	Fundamental Research Funds for the Central Universities [BLX201932] ; National Natural Science Foundation of China [31770744, 31620103902] ; Fundamental Research Funds for the Central Public Welfare Research Institutes [ZZXT201901, ZZXT202003]
作者邮箱	zxzhang@bjfu.edu.cn ; wenj@si.edu
引用统计	被引频次：34[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/2S10CLM1/29066
专题	系统与进化植物学国家重点实验室
作者单位	1.Beijing Forestry Univ, Sch Ecol & Nat Conservat, Lab Systemat Evolut & Biogeog Woody Plants, Beijing 100083, Peoples R China 2.China Acad Chinese Med Sci, Natl Resource Ctr Chinese Mat Medica, State Key Lab Breeding Base Daodi Herbs, Beijing 100700, Peoples R China 3.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China 4.Smithsonian Inst, Dept Bot, Natl Museum Nat Hist, Washington, DC 20013 USA
推荐引用方式 GB/T 7714	Dong, Wen-Pan,Sun, Jia-Hui,Liu, Yan-Lei,et al. Phylogenomic relationships and species identification of the olive genus Olea (Oleaceae)[J]. JOURNAL OF SYSTEMATICS AND EVOLUTION,2022,60(6):1263-1280.
APA	Dong, Wen-Pan.,Sun, Jia-Hui.,Liu, Yan-Lei.,Xu, Chao.,Wang, Yi-Heng.,...&Wen, Jun.(2022).Phylogenomic relationships and species identification of the olive genus Olea (Oleaceae).JOURNAL OF SYSTEMATICS AND EVOLUTION,60(6),1263-1280.
MLA	Dong, Wen-Pan,et al."Phylogenomic relationships and species identification of the olive genus Olea (Oleaceae)".JOURNAL OF SYSTEMATICS AND EVOLUTION 60.6(2022):1263-1280.

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