| Comparative Genomics Analysis of Ciliates Provides Insights on the Evolutionary History Within "Nassophorea-Synhymenia-Phyllopharyngea" Assemblage | |
Pan, B; Chen, X; Hou, LN; Zhang, QQ ; Qu, ZS; Warren, A; Miao, M
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| 发表期刊 | FRONTIERS IN MICROBIOLOGY
 |
| ISSN | 1664-302X |
| 2019-12-12 | |
| 卷号 | 10页码:2819 |
| 关键词 | ciliated protozoa evolution introns phylogenetic relationship stop codon usage |
| 研究领域 | Microbiology |
| DOI | 10.3389/fmicb.2019.02819 |
| 产权排序 | [Pan, Bo; Qu, Zhishuai] Ocean Univ China, Inst Evolut & Marine Biodivers, Qingdao, Shandong, Peoples R China; [Pan, Bo] Qingdao Natl Lab Marine Sci & Technol, Lab Marine Biol & Biotechnol, Qingdao, Shandong, Peoples R China; [Chen, Xiao] Columbia Univ, Med Ctr, Dept Genet & Dev, New York, NY USA; [Hou, Lina; Miao, Miao] Univ Chinese Acad Sci, Savaid Med Sch, Beijing, Peoples R China; [Zhang, Qianqian] Chinese Acad Sci, Yantai Inst Coastal Zone Res, Yantai, Peoples R China; [Qu, Zhishuai] Tech Univ Kaiserslautem, Ecol Grp, Kaiserslautern, Germany; [Warren, Alan] Nat Hist Museum, Dept Life Sci, London, England |
| 通讯作者 | Miao, Miao(miaomiao@ucas.ac.cn) |
| 作者部门 | 海岸带生物资源高效利用研究与发展中心 |
| 英文摘要 | Ciliated protists (ciliates) are widely used for investigating evolution, mostly due to their successful radiation after their early evolutionary branching. In this study, we employed high-throughput sequencing technology to reveal the phylogenetic position of Synhymenia, as well as two classes Nassophorea and Phyllopharyngea, which have been a long-standing puzzle in the field of ciliate systematics and evolution. We obtained genomic and transcriptomic data from single cells of one synhymenian (Chilodontopsis depressa) and six other species of phyllopharyngeans (Chilodochona sp., Dysteria derouxi, Hartmannula sinica, Trithigmostoma cucullulus, Trochilia petrani, and Trochilia sp.). Phylogenomic analysis based on 157 orthologous genes comprising 173,835 amino acid residues revealed the affiliation of C. depressa within the class Phyllopharyngea, and the monophyly of Nassophorea, which strongly support the assignment of Synhymenia as a subclass within the class Phyllopharyngea. Comparative genomic analyses further revealed that C. depressa shares more orthologous genes with the class Nassophorea than with Phyllopharyngea, and the stop codon usage in C. depressa resembles that of Phyllopharyngea. Functional enrichment analysis demonstrated that biological pathways in C. depressa are more similar to Phyllopharyngea than Nassophorea. These results suggest that genomic and transcriptomic data can be used to provide insights into the evolutionary relationships within the "Nassophorea-Synhymenia-Phyllopharyngea" assemblage. |
| 文章类型 | Article |
| 资助机构 | Marine S&T Fund of Shandong Province for Pilot National Laboratory for Marine Science and Technology (Qingdao) [2018SDKJ0406-2] ; Natural Science Foundation of ChinaNational Natural Science Foundation of China [31672279, 31672251] ; Natural Science Foundation of Shandong ProvinceNatural Science Foundation of Shandong Province [JQ201706] ; University of Chinese Academy of SciencesChinese Academy of Sciences [Y8540XX1W2] ; China Scholarship CouncilChina Scholarship Council |
| 收录类别 | SCI |
| 语种 | 英语 |
| 关键词[WOS] | CYTOPHARYNGEAL BASKET ; MACRONUCLEAR GENOME ; FINE-STRUCTURE ; CILIOPHORA ; PHYLOGENY ; SEQUENCE ; ULTRASTRUCTURE ; PROTEIN ; RECONSTRUCTION ; MORPHOLOGY |
| 研究领域[WOS] | Microbiology |
| WOS记录号 | WOS:000504720500001 |
| 引用统计 | |
| 文献类型 | 期刊论文 |
| 条目标识符 | http://ir.yic.ac.cn/handle/133337/24791 |
| 专题 | 海岸带生物学与生物资源利用重点实验室_海岸带生物资源高效利用研究与发展中心 海岸带生物学与生物资源利用重点实验室_海岸带生物学与生物资源保护实验室 |
| 作者单位 | 1.Ocean Univ China, Inst Evolut & Marine Biodivers, Qingdao, Shandong, Peoples R China; 2.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Biol & Biotechnol, Qingdao, Shandong, Peoples R China; 3.Columbia Univ, Med Ctr, Dept Genet & Dev, New York, NY USA; 4.Univ Chinese Acad Sci, Savaid Med Sch, Beijing, Peoples R China; 5.Chinese Acad Sci, Yantai Inst Coastal Zone Res, Yantai, Peoples R China; 6.Tech Univ Kaiserslautem, Ecol Grp, Kaiserslautern, Germany; 7.Nat Hist Museum, Dept Life Sci, London, England |
| 推荐引用方式 GB/T 7714 | Pan, B,Chen, X,Hou, LN,et al. Comparative Genomics Analysis of Ciliates Provides Insights on the Evolutionary History Within "Nassophorea-Synhymenia-Phyllopharyngea" Assemblage[J]. FRONTIERS IN MICROBIOLOGY,2019,10:2819. |
| APA | Pan, B.,Chen, X.,Hou, LN.,Zhang, QQ.,Qu, ZS.,...&Miao, M.(2019).Comparative Genomics Analysis of Ciliates Provides Insights on the Evolutionary History Within "Nassophorea-Synhymenia-Phyllopharyngea" Assemblage.FRONTIERS IN MICROBIOLOGY,10,2819. |
| MLA | Pan, B,et al."Comparative Genomics Analysis of Ciliates Provides Insights on the Evolutionary History Within "Nassophorea-Synhymenia-Phyllopharyngea" Assemblage".FRONTIERS IN MICROBIOLOGY 10(2019):2819. |
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