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Please use this identifier to cite or link to this item:
http://ir.nhri.org.tw/handle/3990099045/6345
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| Title: | Assessing determinants of exonic evolutionary rates in mammals |
| Authors: | Chen, FC;Liao, BY;Pan, CL;Lin, HY;Chang, YF |
| Contributors: | Division of Biostatistics and Bioinformatics |
| Abstract: | From studies investigating the differences in evolutionary rates between genes, gene compactness and gene expression level have been identified as important determinants of gene-level protein evolutionary rate, as represented by nonsynonymous-to-synonymous substitution rate (dN/dS) ratio. However, the causes of exon-level variances in dN/dS are less understood. Here we use principal component regression to examine to what extent thirteen exon features explain the variance in dN, dS, and the dN/dS ratio of human-rhesus macaque or human-mouse orthologous exons. The exon features were grouped into six functional categories: expression features, mRNA splicing features, structural-functional features, compactness features, exon duplicability, and other features, including G+C content and exon length. Although expression features are important for determining dN and dN/dS between exons of different genes, structural-functional features and splicing features explained more of the variance for exons of the same genes. Furthermore, we show that compactness features can explain only a relatively small percentage of variance in exon-level dN or dN/dS in either between-gene or within-gene comparison. By contrast, dS yielded inconsistent results in the human-mouse comparison and the human-rhesus macaque comparison. This inconsistency may suggest rapid evolutionary changes of the mutation landscape in mammals. Our results suggest that between-gene and within-gene variation in dN/dS (and dN) are driven by different evolutionary forces, and that the role of mRNA splicing in causing the variation in evolutionary rates of coding sequences may be underappreciated. |
| Date: | 2012-10 |
| Relation: | Molecular Biology and Evolution. 2012 Oct;29(10):3121-3129. |
| Link to: | http://dx.doi.org/10.1093/molbev/mss116 |
| JIF/Ranking 2023: | http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=NHRI&SrcApp=NHRI_IR&KeyISSN=0737-4038&DestApp=IC2JCR |
| Cited Times(WOS): | https://www.webofscience.com/wos/woscc/full-record/WOS:000309927900023 |
| Cited Times(Scopus): | http://www.scopus.com/inward/record.url?partnerID=HzOxMe3b&scp=84864229460 |
| Appears in Collections: | [陳豐奇] 期刊論文
[廖本揚] 期刊論文
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| PB2012041608.pdf | | 1418Kb | Adobe PDF | 617 | View/Open |
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