Noisy splicing, more than expression regulation, explains why some exons are subject to nonsense-mediated mrna decay
文献类型：期刊论文
| 作者 | Zhang, Zhenguo1,2,3; Xin, Dedong1,2; Wang, Ping1,2,3; Zhou, Li1,2,3; Hu, Landian1,2; Kong, Xiangyin1,2,4; Hurst, Laurence D.5 |
| 刊名 | Bmc biology
 |
| 出版日期 | 2009-05-14 |
| 卷号 | 7页码:13 |
| ISSN号 | 1741-7007 |
| DOI | 10.1186/1741-7007-7-23 |
| 通讯作者 | Kong, xiangyin(xykong@sibs.ac.cn) |
| 英文摘要 | Background: nonsense-mediated decay is a mechanism that degrades mrnas with a premature termination codon. that some exons have premature termination codons at fixation is paradoxical: why make a transcript if it is only to be destroyed? one model supposes that splicing is inherently noisy and spurious transcripts are common. the evolution of a premature termination codon in a regularly made unwanted transcript can be a means to prevent costly translation. alternatively, nonsense-mediated decay can be regulated under certain conditions so the presence of a premature termination codon can be a means to up-regulate transcripts needed when nonsense-mediated decay is suppressed. results: to resolve this issue we examined the properties of putative nonsense-mediated decay targets in humans and mice. we started with a well-annotated set of protein coding genes and found that 2 to 4% of genes are probably subject to nonsense-mediated decay, and that the premature termination codon reflects neither rare mutations nor sequencing artefacts. several lines of evidence suggested that the noisy splicing model has considerable relevance: 1) exons that are uniquely found in nonsense-mediated decay transcripts (nonsense-mediated decay-specific exons) tend to be newly created; 2) have low-inclusion level; 3) tend not to be a multiple of three long; 4) belong to genes with multiple splice isoforms more often than expected; and 5) these genes are not obviously enriched for any functional class nor conserved as nonsense-mediated decay candidates in other species. however, nonsense-mediated decay-specific exons for which distant orthologous exons can be found tend to have been under purifying selection, consistent with the regulation model. conclusion: we conclude that for recently evolved exons the noisy splicing model is the better explanation of their properties, while for ancient exons the nonsense-mediated decay regulated gene expression is a viable explanation. |
| WOS关键词 | NONREDUNDANT SEQUENCE DATABASE ; DETECTING POSITIVE SELECTION ; MAMMALIAN GENE COLLECTION ; PROTEIN ; SURVEILLANCE ; TRANSCRIPTS ; GENOMES ; YEAST ; NCBI ; TERMINATION |
| WOS研究方向 | Life Sciences & Biomedicine - Other Topics |
| WOS类目 | Biology |
| 语种 | 英语 |
| WOS记录号 | WOS:000267524500001 |
| 出版者 | BIOMED CENTRAL LTD |
| URI标识 | http://www.irgrid.ac.cn/handle/1471x/2398791 |
| 专题 | 中国科学院大学 |
| 通讯作者 | Kong, Xiangyin |
| 作者单位 | 1.Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Hlth Sci, Shanghai, Peoples R China 2.Shanghai Jiao Tong Univ, Sch Med, Shanghai 200030, Peoples R China 3.Chinese Acad Sci, Grad Sch, Shanghai, Peoples R China 4.Shanghai Jiao Tong Univ, Ruijin Hosp, State Key Lab Med Genom, Shanghai, Peoples R China 5.Univ Bath, Dept Biol & Biochem, Bath BA2 7AY, Avon, England |
| 推荐引用方式 GB/T 7714 | Zhang, Zhenguo,Xin, Dedong,Wang, Ping,et al. Noisy splicing, more than expression regulation, explains why some exons are subject to nonsense-mediated mrna decay[J]. Bmc biology,2009,7:13. |
| APA | Zhang, Zhenguo.,Xin, Dedong.,Wang, Ping.,Zhou, Li.,Hu, Landian.,...&Hurst, Laurence D..(2009).Noisy splicing, more than expression regulation, explains why some exons are subject to nonsense-mediated mrna decay.Bmc biology,7,13. |
| MLA | Zhang, Zhenguo,et al."Noisy splicing, more than expression regulation, explains why some exons are subject to nonsense-mediated mrna decay".Bmc biology 7(2009):13. |
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来源：中国科学院大学
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