On the origin of new genes in Drosophila

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	On the origin of new genes in Drosophila
	Zhou Q 1,2; Zhang GJ 1,2,3; Zhang Y 1; Xu SY 1; Zhao RP 1; Zhan ZB 1,2; Li X 1,2; Ding Y 1,2; Yang SA 1,3; Wang W*1; wwang@mail.kiz.ac.cn
	2008
发表期刊	GENOME RESEARCH
ISSN	1088-9051
卷号	18 期号:9 页码:1446-1455
摘要	Several mechanisms have been proposed to account for the origination of new genes. Despite extensive case studies, the general principles governing this fundamental process are still unclear at the whole-genome level. Here, we unveil genome-wide patterns for the mutational mechanisms leading to new genes and their subsequent lineage-specific evolution at different time nodes in the Drosophila melanogaster species subgroup. We find that ( 1) tandem gene duplication has generated similar to 80% of the nascent duplicates that are limited to single species ( D. melanogaster or Drosophila yakuba); ( 2) the most abundant new genes shared by multiple species (44.1%) are dispersed duplicates, and are more likely to be retained and be functional; ( 3) de novo gene origination from noncoding sequences plays an unexpectedly important role during the origin of new genes, and is responsible for 11.9% of the new genes; ( 4) retroposition is also an important mechanism, and had generated similar to 10% of the new genes; ( 5) similar to 30% of the new genes in the D. melanogaster species complex recruited various genomic sequences and formed chimeric gene structures, suggesting structure innovation as an important way to help fixation of new genes; and ( 6) the rate of the origin of new functional genes is estimated to be five to 11 genes per million years in the D. melanogaster subgroup. Finally, we survey gene frequencies among 19 globally derived strains for D. melanogaster-specific new genes and reveal that 44.4% of them show copy number polymorphisms within a population. In conclusion, we provide a panoramic picture for the origin of new genes in Drosophila species.
资助者	This work was supported by a CAS-Max Planck Society Fellow- ship, an award (no. 30325016) of the National Science Founda- tion of China (NSFC), two NSFC key grants (nos. 30430400 and 30623007), and a 973 Program (no. 2007CB815703-5) to W.W., and a NSFC grant for junior researchers to S.Y. (no. 30500283). ; This work was supported by a CAS-Max Planck Society Fellow- ship, an award (no. 30325016) of the National Science Founda- tion of China (NSFC), two NSFC key grants (nos. 30430400 and 30623007), and a 973 Program (no. 2007CB815703-5) to W.W., and a NSFC grant for junior researchers to S.Y. (no. 30500283). ; This work was supported by a CAS-Max Planck Society Fellow- ship, an award (no. 30325016) of the National Science Founda- tion of China (NSFC), two NSFC key grants (nos. 30430400 and 30623007), and a 973 Program (no. 2007CB815703-5) to W.W., and a NSFC grant for junior researchers to S.Y. (no. 30500283). ; This work was supported by a CAS-Max Planck Society Fellow- ship, an award (no. 30325016) of the National Science Founda- tion of China (NSFC), two NSFC key grants (nos. 30430400 and 30623007), and a 973 Program (no. 2007CB815703-5) to W.W., and a NSFC grant for junior researchers to S.Y. (no. 30500283).
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收录类别	SCI
资助者	This work was supported by a CAS-Max Planck Society Fellow- ship, an award (no. 30325016) of the National Science Founda- tion of China (NSFC), two NSFC key grants (nos. 30430400 and 30623007), and a 973 Program (no. 2007CB815703-5) to W.W., and a NSFC grant for junior researchers to S.Y. (no. 30500283). ; This work was supported by a CAS-Max Planck Society Fellow- ship, an award (no. 30325016) of the National Science Founda- tion of China (NSFC), two NSFC key grants (nos. 30430400 and 30623007), and a 973 Program (no. 2007CB815703-5) to W.W., and a NSFC grant for junior researchers to S.Y. (no. 30500283). ; This work was supported by a CAS-Max Planck Society Fellow- ship, an award (no. 30325016) of the National Science Founda- tion of China (NSFC), two NSFC key grants (nos. 30430400 and 30623007), and a 973 Program (no. 2007CB815703-5) to W.W., and a NSFC grant for junior researchers to S.Y. (no. 30500283). ; This work was supported by a CAS-Max Planck Society Fellow- ship, an award (no. 30325016) of the National Science Founda- tion of China (NSFC), two NSFC key grants (nos. 30430400 and 30623007), and a 973 Program (no. 2007CB815703-5) to W.W., and a NSFC grant for junior researchers to S.Y. (no. 30500283).
文献类型	期刊论文
条目标识符	http://ir.kiz.ac.cn/handle/152453/4837
专题	基因起源组遗传资源与进化国家重点实验室
通讯作者	wwang@mail.kiz.ac.cn
作者单位	1.AS-Max Planck Junior Research Group, State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China 2.Graduate School of Chinese Academy Sciences, Beijing 100086, China 3.Beijing Genomics Institute-Shenzhen, Shenzhen 518083, China
推荐引用方式 GB/T 7714	Zhou Q,Zhang GJ,Zhang Y,et al. On the origin of new genes in Drosophila[J]. GENOME RESEARCH,2008,18(9):1446-1455.
APA	Zhou Q.,Zhang GJ.,Zhang Y.,Xu SY.,Zhao RP.,...&wwang@mail.kiz.ac.cn.(2008).On the origin of new genes in Drosophila.GENOME RESEARCH,18(9),1446-1455.
MLA	Zhou Q,et al."On the origin of new genes in Drosophila".GENOME RESEARCH 18.9(2008):1446-1455.

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