Whole-Genome Sequencing of Acer catalpifolium Reveals Evolutionary History of Endangered Species

doi:10.1093/gbe/evab271

	Whole-Genome Sequencing of Acer catalpifolium Reveals Evolutionary History of Endangered Species
	Yu, Tao ; Hu, Yiheng 1,2; Zhang, Yuyang 3; Zhao, Ran 1; Yan, Xueqing 1,2; Dayananda, Buddhi 4; Wang, Jinpeng 1,2; Jiao, Yuannian1,2 ; Li, Junqing ; Yi, Xin 1
	2021
发表期刊	GENOME BIOLOGY AND EVOLUTION
ISSN	1759-6653
卷号	13 期号:12
摘要	Acer catalpifolium is an endangered species restricted to remote localities of West China. Understanding the genomic content and evolution of A. catalpifolium is essential to conservation efforts of this rare and ecologically valuable plant. Here, we report a high-quality genome of A. catalpifolium consisting of -654 Mbp and -35,132 protein-coding genes. We detected 969 positively selected genes in two Acer genomes compared with four other eudicots, 65 of which were transcription factors. We hypothesize that these positively selected mutations in transcription factors might affect their function and thus contribute to A. catalpifolium's decline-type population. We also identified 179 significantly expanded gene families compared with 12 other eudicots, some of which are involved in stress responses, such as the FRS-FRF family. We inferred that A. catalpifolium has experienced gene family expansions to cope with environmental stress in its evolutionary history. Finally, 109 candidate genes encoding key enzymes in the lignin biosynthesis pathway were identified in A. catalpifolium; of particular note were the large range and high copy number of cinnamyl alcohol dehydrogenase genes. The chromosome-level genome of A. catalpifolium presented here may serve as a fundamental genomic resource for better understanding endangered Acer species, informing future conservation efforts.
关键词	Acer catalpifolium small population size positive selection gene family evolution comparative genomics
学科领域	Evolutionary Biology ; Genetics & Heredity
DOI	10.1093/gbe/evab271
收录类别	SCI
语种	英语
WOS关键词	TRANSCRIPTION FACTORS ; POPULATION-STRUCTURE ; GENE FAMILY ; INFERENCE ; DIVERSIFICATION ; PREDICTION ; ALIGNMENT ; DATABASE ; ACCURACY ; PATHWAYS
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000809682900014
出版者	OXFORD UNIV PRESS
文献子类	Article
出版地	OXFORD
资助机构	Strategic Priority Research Program of Chinese Academy of Sciences [XDB31000000] ; National Key Research and Development Plan Research on protection on protection and restoration of typical small populations of wild plants [2016YFC0503106]
作者邮箱	lijq@bjfu.edu.cn ; yixin@ibcas.ac.cn
作品OA属性	Green Published, gold
引用统计	被引频次：7[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/2S10CLM1/26541
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, Beijing Key Lab Forest Resources & Ecosyst Proc, Beijing, Peoples R China 2.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing, Peoples R China 3.Univ Chinese Acad Sci, Beijing, Peoples R China 4.Tarim Univ, Coll Plant Sci, Natl Local Joint Engn Lab High Efficiency & Super, Alear, Peoples R China 5.Univ Queensland, Sch Agr & Food Sci, Brisbane, Qld, Australia
推荐引用方式 GB/T 7714	Yu, Tao,Hu, Yiheng,Zhang, Yuyang,et al. Whole-Genome Sequencing of Acer catalpifolium Reveals Evolutionary History of Endangered Species[J]. GENOME BIOLOGY AND EVOLUTION,2021,13(12).
APA	Yu, Tao.,Hu, Yiheng.,Zhang, Yuyang.,Zhao, Ran.,Yan, Xueqing.,...&Yi, Xin.(2021).Whole-Genome Sequencing of Acer catalpifolium Reveals Evolutionary History of Endangered Species.GENOME BIOLOGY AND EVOLUTION,13(12).
MLA	Yu, Tao,et al."Whole-Genome Sequencing of Acer catalpifolium Reveals Evolutionary History of Endangered Species".GENOME BIOLOGY AND EVOLUTION 13.12(2021).

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
Yu-2021-Whole-Genome（1542KB）	期刊论文	出版稿	开放获取	CC BY-NC-SA	浏览请求全文