Gene conversion in the rice genome

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	Gene conversion in the rice genome
	Xu SQ 1,7,8,9; Clark T 1,2; Wong GKS 1,5; Wang J[]1,3,6; Zheng XG[]1; Zheng HK 1,3; Vang S 4; Li RQ 1,3
刊名	BMC GENOMICS
	2008
卷号	9 期号:X 页码:e93
通讯作者	wangj@genomics.org.cn ; zhengxg@genomics.org.cn
合作状况	其它
英文摘要	Background: Gene conversion causes a non-reciprocal transfer of genetic information between similar sequences. Gene conversion can both homogenize genes and recruit point mutations thereby shaping the evolution of multigene families. In the rice genome, the large number of duplicated genes increases opportunities for gene conversion. Results: To characterize gene conversion in rice, we have defined 626 multigene families in which 377 gene conversions were detected using the GENECONV program. Over 60% of the conversions we detected were between chromosomes. We found that the inter-chromosomal conversions distributed between chromosome 1 and 5, 2 and 6, and 3 and 5 are more frequent than genome average (Z-test, P < 0.05). The frequencies of gene conversion on the same chromosome decreased with the physical distance between gene conversion partners. Ka/Ks analysis indicates that gene conversion is not tightly linked to natural selection in the rice genome. To assess the contribution of segmental duplication on gene conversion statistics, we determined locations of conversion partners with respect to inter-chromosomal segment duplication. The number of conversions associated with segmentation is less than ten percent. Pseudogenes in the rice genome with low similarity to Arabidopsis genes showed greater likelihood for gene conversion than those with high similarity to Arabidopsis genes. Functional annotations suggest that at least 14 multigene families related to disease or bacteria resistance were involved in conversion events. Conclusion: The evolution of gene families in the rice genome may have been accelerated by conversion with pseudogenes. Our analysis suggests a possible role for gene conversion in the evolution of pathogen-response genes.
收录类别	SCI
资助信息	This project was supported by Chinese Academy of Sciences (KSCX2-YW- N-023; GJHZ0518), Ministry of Science and Technology under high-tech program 863 (2006AA02Z334; 2006AA10A121), Beijing Municipal Science and Technology Commission (D07030200740000), and National Natural Science Foundation of China (90608010; 90208019; 90403130; 30221004; 90612019; 30392130). Other support came from Ole Rømer grants from the Danish Natural Science Research Council and the Danish Medical Research Council.
语种	英语
内容类型	期刊论文
源URL	[http://159.226.149.26:8080/handle/152453/10512]
专题	昆明动物研究所_其他
作者单位	1.Beijing Institute of Genomics of Chinese Academy of Sciences, Beijing Genomics Institute, Beijing Proteomics Institute, Beijing 101300 2.Department of Electrial Engineering and Computer Science, University of Kansas, Lawrence, KS 66046, USA 3.Department of Biochemistry and Molecular Biology, University of Southern Denmark, DK-5230, Odense M, Denmark 4.Research Unit for Molecular Medicine, Aarhus University Hospital and Faculty of Health Sciences, DK-8200 Aarhus N, Denmark 5.Department of Biological Sciences and Department of Medicine, University of Alberta, Edmonton, Alberta, T6G 2E9, Canada 6.The Institute of Human Genetics, University of Aarhus, DK-8000 Aarhus C, Denmark 7.Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, China 8.Graduate University of Chinese Academy of Sciences, Beijing, 100049, China 9.Current address: Institute of Integrative Biology, ETH Zurich, 8092, Switzerland
推荐引用方式 GB/T 7714	Xu SQ,Clark T,Wong GKS,et al. Gene conversion in the rice genome[J]. BMC GENOMICS,2008,9(X):e93.
APA	Xu SQ.,Clark T.,Wong GKS.,Wang J[].,Zheng XG[].,...&Li RQ.(2008).Gene conversion in the rice genome.BMC GENOMICS,9(X),e93.
MLA	Xu SQ,et al."Gene conversion in the rice genome".BMC GENOMICS 9.X(2008):e93.