Features and trend of loss of promoter-associated CpG islands in the human and mouse genomes

CORC > 昆明动物研究所 > 昆明动物研究所 > 遗传资源与进化国家重点实验室 > 比较基因组学

	Features and trend of loss of promoter-associated CpG islands in the human and mouse genomes
	Jiang CZ 1; Han L 2,3; Su B 2; Li WH 4; Zhao ZM[*]1
刊名	MOLECULAR BIOLOGY AND EVOLUTION
	2007
卷号	24 期号:9 页码:1991-2000
关键词	cpG island evolution promoter DNA methylation functional bias human mouse
通讯作者	zzhao@vcu.edu
合作状况	其它
英文摘要	CpG islands (CGIs) are often considered as gene markers, but the number of CGIs varies among mammalian genomes that have similar numbers of genes. In this study, we investigated the distribution of CGIs in the promoter regions of 3,197 human-mouse orthologous gene pairs and found that the mouse genome has notably fewer CGIs in the promoter regions and less pronounced CGI characteristics than does the human genome. We further inferred CGI's ancestral state using the dog genome as a reference and examined the nucleotide substitution pattern and the mutational direction in the conserved regions of human and mouse CGIs. The results reveal many losses of CGIs in both genomes but the loss rate in the mouse lineage is two to four times the rate in the human lineage. We found an intriguing feature of CGI loss, namely that the loss of a CGI usually starts from erosion at the both edges and gradually moves towards the center. We found functional bias in the genes that have lost promoter-associated CGIs in the human or mouse lineage. Finally, our analysis indicates that the association of CGIs with housekeeping genes is not as strong as previously estimated. Our study provides a detailed view of the evolution of promoter-associated CGIs in the human and mouse genomes and our findings are helpful for understanding the evolution of mammalian genomes and the role of CGIs in gene function.
收录类别	SCI
资助信息	This project was supported by the Thomas F. and Kate Miller Jeffress Memorial Trust Fund and a NARSAD Young Investigator Award (to Z. Zhao).
语种	英语
内容类型	期刊论文
源URL	[http://159.226.149.26:8080/handle/152453/10525]
专题	昆明动物研究所_比较基因组学昆明动物研究所_细胞与分子进化重点实验室
作者单位	1.Department of Psychiatry and Center for the Study of Biological Complexity, Virginia Commonweal 2.Key Laboratory of Cellular and Molecular Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China 3.Graduate School, Chinese Academy of Sciences, Beijing, China 4.Department of Ecology and Evolution, University of Chicago
推荐引用方式 GB/T 7714	Jiang CZ,Han L,Su B,et al. Features and trend of loss of promoter-associated CpG islands in the human and mouse genomes[J]. MOLECULAR BIOLOGY AND EVOLUTION,2007,24(9):1991-2000.
APA	Jiang CZ,Han L,Su B,Li WH,&Zhao ZM[*].(2007).Features and trend of loss of promoter-associated CpG islands in the human and mouse genomes.MOLECULAR BIOLOGY AND EVOLUTION,24(9),1991-2000.
MLA	Jiang CZ,et al."Features and trend of loss of promoter-associated CpG islands in the human and mouse genomes".MOLECULAR BIOLOGY AND EVOLUTION 24.9(2007):1991-2000.