| Variations and evolution of polyubiquitin genes from ciliates | |
Liu, Xihan1,2; Shi, Fei1; Gong, Jun1,3
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| 发表期刊 | EUROPEAN JOURNAL OF PROTISTOLOGY
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| ISSN | 0932-4739 |
| 2013 | |
| 卷号 | 49期号:1页码:40-49 |
| 关键词 | Ciliates Ubiquitin Polyubiquitin Gene Molecular Evolution Phylogenetics |
| 产权排序 | [Liu, Xihan; Shi, Fei; Gong, Jun] Chinese Acad Sci, Yantai Inst Coastal Zone Res, Yantai 264003, Peoples R China; [Liu, Xihan] Ocean Univ China, Lab Protozool, Qingdao 266003, Peoples R China; [Gong, Jun] S China Normal Univ, Coll Life Sci, Guangzhou 510631, Guangdong, Peoples R China |
| 通讯作者 | Gong, J (reprint author), Chinese Acad Sci, Yantai Inst Coastal Zone Res, Yantai 264003, Peoples R China. [email protected] |
| 作者部门 | 海岸带生物学与生物资源利用所重点实验室 |
| 英文摘要 | Polyubiquitin genes from seven ciliate species were amplified, cloned and sequenced. It is estimated that Strombidium sulcatum, Euplotes vannus, E. rariseta and Anteholosticha manca have a polyubiquitin gene of 3 repeats, and A. parawarreni, Paramecium caudatum and Pseudokeronopsis flava 4 repeats. The newly obtained ubiquitins mostly differ from that of humans by 1-5 residues in amino acid sequences. A neighbor-joining tree constructed based on monomeric ubiquitin genes supports the monophyly of an assemblage comprising the litostomateans and some oligohymenophoreans, but not the class Spirotrichea. The monomers from the same species are generally placed together and highly supported for the class Litostomatea, the genera Paramecium and Icthyophthirius, but not for other species. The non-synonymous/synonymous rate ratio (dN/dS) at the protein level are less than 1, and the synonymous nucleotide differences per synonymous site (p(S)) from intraspecific comparisons are fairly high (0.02-0.72). These results indicate that ciliates have not only the conserved, but also some quite divergent, polyubiquitin genes and confirm that the polyubiquitin genes in ciliates evolve according to the birth-and-death mode of evolution under strong purifying selection. (C) 2012 Elsevier GmbH. All rights reserved.; Polyubiquitin genes from seven ciliate species were amplified, cloned and sequenced. It is estimated that Strombidium sulcatum, Euplotes vannus, E. rariseta and Anteholosticha manca have a polyubiquitin gene of 3 repeats, and A. parawarreni, Paramecium caudatum and Pseudokeronopsis flava 4 repeats. The newly obtained ubiquitins mostly differ from that of humans by 1-5 residues in amino acid sequences. A neighbor-joining tree constructed based on monomeric ubiquitin genes supports the monophyly of an assemblage comprising the litostomateans and some oligohymenophoreans, but not the class Spirotrichea. The monomers from the same species are generally placed together and highly supported for the class Litostomatea, the genera Paramecium and Icthyophthirius, but not for other species. The non-synonymous/synonymous rate ratio (dN/dS) at the protein level are less than 1, and the synonymous nucleotide differences per synonymous site (p(S)) from intraspecific comparisons are fairly high (0.02-0.72). These results indicate that ciliates have not only the conserved, but also some quite divergent, polyubiquitin genes and confirm that the polyubiquitin genes in ciliates evolve according to the birth-and-death mode of evolution under strong purifying selection. (C) 2012 Elsevier GmbH. All rights reserved. |
| 文章类型 | Article |
| 资助机构 | FANEDD [2007B27]; Natural Science Foundation of China [40976099]; One Hundred Talent Program of CAS |
| 收录类别 | SCI |
| 语种 | 英语 |
| 关键词[WOS] | UBIQUITIN GENES ; DEATH EVOLUTION ; PURIFYING SELECTION ; GENOME SEQUENCE ; TETRAHYMENA-PYRIFORMIS ; PHYLOGENETIC ANALYSIS ; ARABIDOPSIS-THALIANA ; STRUCTURAL FEATURES ; MOLECULAR PHYLOGENY ; MAXIMUM-LIKELIHOOD |
| 研究领域[WOS] | Microbiology |
| WOS记录号 | WOS:000316831900004 |
| 引用统计 | |
| 文献类型 | 期刊论文 |
| 条目标识符 | http://ir.yic.ac.cn/handle/133337/6478 |
| 专题 | 海岸带生物学与生物资源利用重点实验室_海岸带生物学与生物资源保护实验室 |
| 作者单位 | 1.Chinese Acad Sci, Yantai Inst Coastal Zone Res, Yantai 264003, Peoples R China 2.Ocean Univ China, Lab Protozool, Qingdao 266003, Peoples R China 3.S China Normal Univ, Coll Life Sci, Guangzhou 510631, Guangdong, Peoples R China |
| 推荐引用方式 GB/T 7714 | Liu, Xihan,Shi, Fei,Gong, Jun. Variations and evolution of polyubiquitin genes from ciliates[J]. EUROPEAN JOURNAL OF PROTISTOLOGY,2013,49(1):40-49. |
| APA | Liu, Xihan,Shi, Fei,&Gong, Jun.(2013).Variations and evolution of polyubiquitin genes from ciliates.EUROPEAN JOURNAL OF PROTISTOLOGY,49(1),40-49. |
| MLA | Liu, Xihan,et al."Variations and evolution of polyubiquitin genes from ciliates".EUROPEAN JOURNAL OF PROTISTOLOGY 49.1(2013):40-49. |
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