Phylotranscriptomic analyses reveal deep gene tree discordance in Camellia (Theaceae)
文献类型：期刊论文
| 作者 | Zhang,Qiong; Folk,Ryan A.; Mo,Zhi-Qiong; Ye,Hang; Zhang,Zhao-Yuan; Peng,Hua ; Zhao,Jian-Li; Yang,Shi-Xiong; Yu,Xiang-Qin
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| 刊名 | MOLECULAR PHYLOGENETICS AND EVOLUTION
 |
| 出版日期 | 2023 |
| 卷号 | 188页码:107912 |
| 关键词 | Camellia Gene tree discordance Transcriptome Rapid diversification Selective pressure RNA-SEQ DATA PHYLOGENETIC ANALYSIS NUCLEAR GENES SEQUENCE EVOLUTION RESOLUTION HISTORY INFERENCE ALGORITHM SELECTION |
| ISSN号 | 1095-9513 |
| DOI | 10.1016/j.ympev.2023.107912 |
| 英文摘要 | Gene tree discordance is a significant legacy of biological evolution. Multiple factors can result in incongruence among genes, such as introgression, incomplete lineage sorting (ILS), gene duplication or loss. Resolving the background of gene tree discordance is a critical way to uncover the process of species diversification. Camellia, the largest genus in Theaceae, has controversial taxonomy and systematics due in part to a complex evolutionary history. We used 60 transcriptomes of 55 species, which represented 15 sections of Camellia to investigate its phylogeny and the possible causes of gene tree discordance. We conducted gene tree discordance analysis based on 1,617 orthologous low-copy nuclear genes, primarily using coalescent species trees and polytomy tests to distinguish hard and soft conflict. A selective pressure analysis was also performed to assess the impact of se-lection on phylogenetic topology reconstruction. Our results detected different levels of gene tree discordance in the backbone of Camellia, and recovered rapid diversification as one of the possible causes of gene tree discor-dance. Furthermore, we confirmed that none of the currently proposed sections of Camellia was monophyletic. Comparisons among datasets partitioned under different selective pressure regimes showed that integrating all orthologous genes provided the best phylogenetic resolution of the species tree of Camellia. The findings of this study reveal rapid diversification as a major source of gene tree discordance in Camellia and will facilitate future investigation of reticulate relationships at the species level in this important plant genus. |
| WOS记录号 | WOS:001097311500001 |
| 源URL | [http://ir.kib.ac.cn/handle/151853/75495]  |
| 专题 | 中国科学院昆明植物研究所 |
| 推荐引用方式 GB/T 7714 | Zhang,Qiong,Folk,Ryan A.,Mo,Zhi-Qiong,et al. Phylotranscriptomic analyses reveal deep gene tree discordance in Camellia (Theaceae)[J]. MOLECULAR PHYLOGENETICS AND EVOLUTION,2023,188:107912. |
| APA | Zhang,Qiong.,Folk,Ryan A..,Mo,Zhi-Qiong.,Ye,Hang.,Zhang,Zhao-Yuan.,...&Yu,Xiang-Qin.(2023).Phylotranscriptomic analyses reveal deep gene tree discordance in Camellia (Theaceae).MOLECULAR PHYLOGENETICS AND EVOLUTION,188,107912. |
| MLA | Zhang,Qiong,et al."Phylotranscriptomic analyses reveal deep gene tree discordance in Camellia (Theaceae)".MOLECULAR PHYLOGENETICS AND EVOLUTION 188(2023):107912. |
入库方式： OAI收割
来源：昆明植物研究所
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