What signatures dominantly associate with gene age?
文献类型：期刊论文
| 作者 | Yin, Hongyan1,2,3; Wang, Guangyu1,2,3; Ma, Lina1,2; Yi, Soojin V.4; Zhang, Zhang1,2,3 |
| 刊名 | Genome biology and evolution
 |
| 出版日期 | 2016-10-01 |
| 卷号 | 8期号:10页码:3083-3089 |
| ISSN号 | 1759-6653 |
| 关键词 | Gene age Signature Gc content Ppin Principle component analysis |
| DOI | 10.1093/gbe/evw216 |
| 通讯作者 | Zhang, zhang(zhangzhang@big.ac.cn) |
| 英文摘要 | As genes originate at different evolutionary times, they harbor distinctive genomic signatures of evolutionary ages. although previous studies have investigated different gene age-related signatures, what signatures dominantly associate with gene age remains unresolved. here we address this question via a combined approach of comprehensive assignment of gene ages, gene family identification, and multivariate analyses. we first provide a comprehensive and improved gene age assignment by combining homolog clustering with phylogeny inference and categorize human genes into 26 age classes spanning the whole tree of life. we then explore the dominant age-related signatures based on a collection of 10 potential signatures (including gene composition, gene length, selection pressure, expression level, connectivity in protein-protein interaction network and dna methylation). our results show that gc content and connectivity in protein-protein interaction network (ppin) associate dominantly with gene age. furthermore, we investigate the heterogeneity of dominant signatures in duplicates and singletons. we find that gc content is a consistent primary factor of gene age in duplicates and singletons, whereas ppin is more strongly associated with gene age in singletons than in duplicates. taken together, gc content and ppin are two dominant signatures in close association with gene age, exhibiting heterogeneity in duplicates and singletons and presumably reflecting complex differential interplays between natural selection and mutation. |
| WOS关键词 | GENOME EVOLUTION ; DNA METHYLATION ; VERTEBRATE EVOLUTION ; DUPLICATE GENES ; LARGE-SCALE ; GC CONTENT ; DROSOPHILA ; SELECTION ; ORIGIN ; BIAS |
| WOS研究方向 | Evolutionary Biology ; Genetics & Heredity |
| WOS类目 | Evolutionary Biology ; Genetics & Heredity |
| 语种 | 英语 |
| 出版者 | OXFORD UNIV PRESS |
| WOS记录号 | WOS:000386121300001 |
| URI标识 | http://www.irgrid.ac.cn/handle/1471x/2374934 |
| 专题 | 中国科学院大学 |
| 通讯作者 | Zhang, Zhang |
| 作者单位 | 1.Chinese Acad Sci, Beijing Inst Genom BIG, CAS Key Lab Genome Sci & Informat, Beijing, Peoples R China 2.Chinese Acad Sci, Beijing Inst Genom BIG, BIG Data Ctr, Beijing, Peoples R China 3.Univ Chinese Acad Sci, Beijing, Peoples R China 4.Georgia Inst Technol, Sch Biol, Atlanta, GA 30332 USA |
| 推荐引用方式 GB/T 7714 | Yin, Hongyan,Wang, Guangyu,Ma, Lina,et al. What signatures dominantly associate with gene age?[J]. Genome biology and evolution,2016,8(10):3083-3089. |
| APA | Yin, Hongyan,Wang, Guangyu,Ma, Lina,Yi, Soojin V.,&Zhang, Zhang.(2016).What signatures dominantly associate with gene age?.Genome biology and evolution,8(10),3083-3089. |
| MLA | Yin, Hongyan,et al."What signatures dominantly associate with gene age?".Genome biology and evolution 8.10(2016):3083-3089. |
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来源：中国科学院大学
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