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| Genome-Wide Analyses of a Plant-Specific LIM-Domain Gene Family Implicate Its Evolutionary Role in Plant Diversification | |
Zhao, Man1; He, Lingli1; Gu, Yongzhe1; Wang, Yan; Chen, Qingshan2; He, Chaoying
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| 2014 | |
| Source Publication | GENOME BIOLOGY AND EVOLUTION
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| ISSN | 1759-6653 |
| Volume | 6Issue:4Pages:1000-1012 |
| Abstract | The Arabidopsis DA1 genes appear to have multiple functions in regulating organ size and abiotic stress response, but the biological roles of its closely related genes remain unknown. Evolutionary analyses might provide some clues to aid in an understanding of their functional diversification. In this work, we characterized the molecular evolution and expressional diversification of DA1-like genes. Surveying 354 sequenced genomes revealed 142 DA1-like genes only in plants, indicating plant-specificity of these genes. The DA1-like protein modular structure was composed of two UIMs (ubiquitin interaction motifs), one LIM-domain (from lin-11, isl-1, and mec-3), and a conserved C-terminal, and was distinguishable from the already defined three groups of LIM-domain proteins. We further found that the DA1-like genes diverged into Classes I and II at the ancestor of seed plants and acquired 13 clade-specific residues during their evolutionary history. Moreover, diverse intron size evolution was noted following the transition from size-expandable introns to minimal ones, accompanying the emergence and diversification of angiosperms. Functional diversification as it relates to gene expression was further investigated in soybean. Glycine max DA1 genes showed diverse tissues expression patterns during development and had substantially varied abiotic stress response expression. Thus, variations in the coding regions, intron size, and gene expression contributed to the functional diversification of this gene family. Our data suggest that the evolution of the DA1-like genes facilitated the development of diverse molecular and functional diversification patterns to accompany the successful radiation of plants into diverse environments during evolution. |
| Keyword | abiotic stress gene expression genome LIM-domain evolution soybean |
| Subject Area | Evolutionary Biology ; Genetics & Heredity |
| DOI | 10.1093/gbe/evu076 |
| Indexed By | SCI |
| Language | 英语 |
| WOS Keyword | RNA SECONDARY STRUCTURE ; CYSTEINE-RICH PROTEIN ; E3 UBIQUITIN LIGASE ; TRANSCRIPTION FACTORS ; EXPRESSION ANALYSIS ; SEQUENCE EVOLUTION ; PROTEASOME SYSTEM ; INTRON EVOLUTION ; ORGAN SIZE ; ARABIDOPSIS |
| WOS Research Area | Evolutionary Biology ; Genetics & Heredity |
| WOS ID | WOS:000336080700023 |
| Publisher | OXFORD UNIV PRESS |
| Subtype | Article |
| Publication Place | OXFORD |
| Funding Organization | Chinese Academy of Sciences [XDA08010105] |
| Corresponding Author Email | chaoying@ibcas.ac.cn |
| OA | Green Submitted, Green Published, gold |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://ir.ibcas.ac.cn/handle/2S10CLM1/27035 |
| Collection | 系统与进化植物学国家重点实验室 |
| Affiliation | 1.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing, Peoples R China 2.Univ Chinese Acad Sci, Beijing, Peoples R China 3.Northeast Agr Univ, Coll Agr, Harbin, Heilongjiang, Peoples R China |
| Recommended Citation GB/T 7714 | Zhao, Man,He, Lingli,Gu, Yongzhe,et al. Genome-Wide Analyses of a Plant-Specific LIM-Domain Gene Family Implicate Its Evolutionary Role in Plant Diversification[J]. GENOME BIOLOGY AND EVOLUTION,2014,6(4):1000-1012. |
| APA | Zhao, Man,He, Lingli,Gu, Yongzhe,Wang, Yan,Chen, Qingshan,&He, Chaoying.(2014).Genome-Wide Analyses of a Plant-Specific LIM-Domain Gene Family Implicate Its Evolutionary Role in Plant Diversification.GENOME BIOLOGY AND EVOLUTION,6(4),1000-1012. |
| MLA | Zhao, Man,et al."Genome-Wide Analyses of a Plant-Specific LIM-Domain Gene Family Implicate Its Evolutionary Role in Plant Diversification".GENOME BIOLOGY AND EVOLUTION 6.4(2014):1000-1012. |
| Files in This Item: | ||||||
| File Name/Size | DocType | Version | Access | License | ||
| Zhao-2014-Genome-Wid（1681KB） | 期刊论文 | 出版稿 | 开放获取 | CC BY-NC-SA | View Application Full Text | |
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