Phylogenomics and the flowering plant tree of life

doi:10.1111/jipb.13415

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	Phylogenomics and the flowering plant tree of life
	Guo, Cen; Luo, Yang; Gao, Lian-Ming; Yi, Ting-Shuang; Li, Hong-Tao; Yang, Jun-Bo; Li, De-Zhu
	2022
发表期刊	JOURNAL OF INTEGRATIVE PLANT BIOLOGY
摘要	The advances accelerated by next-generation sequencing and long-read sequencing technologies continue to provide an impetus for plant phylogenetic study. In the past decade, a large number of phylogenetic studies adopting hundreds to thousands of genes across a wealth of clades have emerged and ushered plant phylogenetics and evolution into a new era. In the meantime, a roadmap for researchers when making decisions across different approaches for their phylogenomic research design is imminent. This review focuses on the utility of genomic data (from organelle genomes, to both reduced representation sequencing and whole-genome sequencing) in phylogenetic and evolutionary investigations, describes the baseline methodology of experimental and analytical procedures, and summarizes recent progress in flowering plant phylogenomics at the ordinal, familial, tribal, and lower levels. We also discuss the challenges, such as the adverse impact on orthology inference and phylogenetic reconstruction raised from systematic errors, and underlying biological factors, such as whole-genome duplication, hybridization/introgression, and incomplete lineage sorting, together suggesting that a bifurcating tree may not be the best model for the tree of life. Finally, we discuss promising avenues for future plant phylogenomic studies.
关键词	angiosperms hybridization incomplete lineage sorting orthology inference phylogenetic conflicts reduced representation sequencing whole-genome sequencing whole-genome duplication SYSTEMATIC-ERRORS RNA-SEQ SEQUENCE CAPTURE SEED PLANTS DATA SETS GENOME EVOLUTION RADSEQ TOOL CLASSIFICATION
DOI	10.1111/jipb.13415
收录类别	SCI
WOS记录号	WOS:000905858600001
引用统计
文献类型	期刊论文
条目标识符	http://ir.kib.ac.cn/handle/151853/75661
专题	中国科学院昆明植物研究所
推荐引用方式 GB/T 7714	Guo, Cen,Luo, Yang,Gao, Lian-Ming,et al. Phylogenomics and the flowering plant tree of life[J]. JOURNAL OF INTEGRATIVE PLANT BIOLOGY,2022.
APA	Guo, Cen.,Luo, Yang.,Gao, Lian-Ming.,Yi, Ting-Shuang.,Li, Hong-Tao.,...&Li, De-Zhu.(2022).Phylogenomics and the flowering plant tree of life.JOURNAL OF INTEGRATIVE PLANT BIOLOGY.
MLA	Guo, Cen,et al."Phylogenomics and the flowering plant tree of life".JOURNAL OF INTEGRATIVE PLANT BIOLOGY (2022).

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