Adaptation and Phenotypic Diversification in Arabidopsis through Loss-of-Function Mutations in Protein-Coding Genes
文献类型：期刊论文
| 作者 | Xu, Yong-Chao; Niu, Xiao-Min; Li, Xin-Xin; He, Wenrong3; Chen, Jia-Fu; Zou, Yu-Pan; Wu, Qiong; Zhang, Yong E.; Busch, Wolfgang3; Guo, Ya-Long |
| 刊名 | PLANT CELL
 |
| 出版日期 | 2019 |
| 卷号 | 31期号:5页码:1012-1025 |
| ISSN号 | 1040-4651 |
| DOI | 10.1105/tpc.18.00791 |
| 文献子类 | Article |
| 英文摘要 | According to the less-is-more hypothesis, gene loss is an engine for evolutionary change. Loss-of-function (LoF) mutations resulting in the natural knockout of protein-coding genes not only provide information about gene function but also play important roles in adaptation and phenotypic diversification. Although the less-is-more hypothesis was proposed two decades ago, it remains to be explored on a large scale. In this study, we identified 60,819 LoF variants in 1071 Arabidopsis (Arabidopsis thaliana) genomes and found that 34% of Arabidopsis protein-coding genes annotated in the Columbia-0 genome do not have any LoF variants. We found that nucleotide diversity, transposable element density, and gene family size are strongly correlated with the presence of LoF variants. Intriguingly, 0.9% of LoF variants with minor allele frequency larger than 0.5% are associated with climate change. In addition, in the Yangtze River basin population, 1% of genes with LoF mutations were under positive selection, providing important insights into the contribution of LoF mutations to adaptation. In particular, our results demonstrate that LoF mutations shape diverse phenotypic traits. Overall, our results highlight the importance of the LoF variants for the adaptation and phenotypic diversification of plants. |
| 学科主题 | Biochemistry & Molecular Biology ; Plant Sciences ; Cell Biology |
| 电子版国际标准刊号 | 1532-298X |
| 出版地 | CARY |
| WOS关键词 | DE-NOVO GENES ; DOSAGE-SENSITIVITY ; BALANCE HYPOTHESIS ; GENOMES ; EVOLUTION ; VARIANTS ; TRANSITION ; DIVERSITY ; DISCOVERY ; HISTORY |
| WOS研究方向 | Biochemistry & Molecular Biology ; Plant Sciences ; Cell Biology |
| 语种 | 英语 |
| 出版者 | OXFORD UNIV PRESS INC |
| WOS记录号 | WOS:000467755300008 |
| 资助机构 | Chinese Academy of SciencesChinese Academy of Sciences [XDB27010305] ; National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [91731306] ; Salk Institute for Biological Research ; Innovative Academy of Seed Design, Chinese Academy of Sciences |
| 源URL | [http://ir.ibcas.ac.cn/handle/2S10CLM1/19832]  |
| 专题 | 系统与进化植物学国家重点实验室 |
| 作者单位 | 1.Salk Inst Biol Studies, Plant Mol & Cellular Biol Lab, La Jolla, CA 92037 USA 2.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China 3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 4.Zhang, Yong E.] Chinese Acad Sci, Inst Zool, State Key Lab Integrated Management Pest Insects, Beijing, Peoples R China 5.Zhang, Yong E.] Chinese Acad Sci, Inst Zool, Rodents & Key Lab Zool Systemat & Evolut, Beijing, Peoples R China |
| 推荐引用方式 GB/T 7714 | Xu, Yong-Chao,Niu, Xiao-Min,Li, Xin-Xin,et al. Adaptation and Phenotypic Diversification in Arabidopsis through Loss-of-Function Mutations in Protein-Coding Genes[J]. PLANT CELL,2019,31(5):1012-1025. |
| APA | Xu, Yong-Chao.,Niu, Xiao-Min.,Li, Xin-Xin.,He, Wenrong.,Chen, Jia-Fu.,...&Guo, Ya-Long.(2019).Adaptation and Phenotypic Diversification in Arabidopsis through Loss-of-Function Mutations in Protein-Coding Genes.PLANT CELL,31(5),1012-1025. |
| MLA | Xu, Yong-Chao,et al."Adaptation and Phenotypic Diversification in Arabidopsis through Loss-of-Function Mutations in Protein-Coding Genes".PLANT CELL 31.5(2019):1012-1025. |
入库方式： OAI收割
来源：植物研究所
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