Genome-wide identification and characterization of teleost-specific microRNAs within zebrafish
文献类型：期刊论文
| 作者 | Yang, Liandong1,2; Irwin, David M.3,4; He, Shunping1 |
| 刊名 | GENE
 |
| 出版日期 | 2015-05-01 |
| 卷号 | 561期号:2页码:181-189 |
| 关键词 | Teleost MicroRNA Comparative genomics Zebrafish embryogenesis |
| ISSN号 | 0378-1119 |
| 通讯作者 | He, SP (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Hubei, Peoples R China. |
| 英文摘要 | The molecular genetic basis of teleost phenotypic diversity remains poorly understood, despite the increasing availability of genome and transcriptome data. Changes in gene expression, resulting from regulatory mutations, contribute to many or even most phenotypic innovations. In this study, we performed comparative genomic analyses to identify 44 Conserved Teleost-Specific MicroRNAs (CTSMs). An analysis of the sequences of CTSMs demonstrated that their sequence variability is significantly higher than that of Evolutionarily Conserved microRNAs (ECs - microRNAs conserved throughout vertebrates), and that this difference primarily results from variation in the loop regions. We computationally predicted target genes for CTSMs and found that the targets of CTSMs show significantly lower SNP density compared with targets of ECs as well as non-targets of CTSMs. The temporal expression profile of targets of CTSMs obtained from RNA-seq data revealed that the targets of CTSMs are specifically enriched in early-stage embryos and exhibit a broader expression spectrum. Finally, functional enrichment analysis (GO and KEGG) indicated that the targets of CTSMs play diverse functional roles, with a significantly enriched category being the "immune response". Our study provides the first systematic identification and characterization of conserved teleost-specific microRNAs and their targets and presents valuable foundation for a better understanding the genomic basis for the diversification of teleosts. (C) 2015 Elsevier B.V. All rights reserved. |
| WOS标题词 | Science & Technology ; Life Sciences & Biomedicine |
| 类目[WOS] | Genetics & Heredity |
| 研究领域[WOS] | Genetics & Heredity |
| 关键词[WOS] | RNA-SEQ ; TARGET RECOGNITION ; EVOLUTIONARY RATES ; ANIMAL DEVELOPMENT ; NONCODING RNAS ; GENE LOSS ; DUPLICATION ; FISH ; DIVERSIFICATION ; ANNOTATION |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000351802100002 |
| 源URL | [http://ir.ihb.ac.cn/handle/342005/23832]  |
| 专题 | 水生生物研究所_水生生物多样性与资源保护研究中心_期刊论文 |
| 作者单位 | 1.Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Hubei, Peoples R China 2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 3.Univ Toronto, Dept Lab Med & PathoBiol, Toronto, ON M5S 1A1, Canada 4.Univ Toronto, Banting & Best Diabet Ctr, Toronto, ON M5S 1A1, Canada |
| 推荐引用方式 GB/T 7714 | Yang, Liandong,Irwin, David M.,He, Shunping. Genome-wide identification and characterization of teleost-specific microRNAs within zebrafish[J]. GENE,2015,561(2):181-189. |
| APA | Yang, Liandong,Irwin, David M.,&He, Shunping.(2015).Genome-wide identification and characterization of teleost-specific microRNAs within zebrafish.GENE,561(2),181-189. |
| MLA | Yang, Liandong,et al."Genome-wide identification and characterization of teleost-specific microRNAs within zebrafish".GENE 561.2(2015):181-189. |
入库方式： OAI收割
来源：水生生物研究所
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