title: Whole genome methylation array reveals the down-regulation of IGFBP6 and SATB2 by HIV-1.
abstract: Nowadays, the knowledge in DNA methylation-mediated gene regulation has shed light on the understanding of virus-host interplay in the context of genome alteration. It has also been shown that HIV is able to change the DNA methylation pattern by DNA methyltransferases and such changes can be correlated with the progression of AIDS. In this study, we have investigated the relationship between genome-wide DNA methylation pattern and HIV infection using the methylated DNA immunoprecipitation--microarray method. A pair of monozygotic twins was recruited: one of the twins was infected with HIV while the other was not. Based on data from the microarray experiment, 4679 differentially methylated regions in the HIV positive subject with the significant peak values were identified. Selected genes were then validated in human T lymphocyte CEM*174 cell line and HIV/AIDS patients by comparing with normal subjects. We found that IGFBP6 and SATB2 were significantly down-regulated in HIV-infected CEM*174 cells and 3 different cohorts of HIV/AIDS patients while their promoters were predominantly hyper-methylated compared with normal controls. This study also provides a resource for the identification of HIV-induced methylation and contributes to better understanding of the development of HIV/AIDS.
authors.affiliation: School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong.
authors.forename: Yinfeng
authors.initials: Y
authors.lastname: Zhang
authors.affiliation: School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong.
authors.forename: Sai-Kam
authors.initials: SK
authors.lastname: Li
authors.affiliation: 1] School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong [2] Hong Kong Bioinformatics Center, The Chinese University of Hong Kong, Hong Kong.
authors.forename: Kevin
authors.initials: K
authors.lastname: Yi Yang
authors.affiliation: 1] School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong [2] Hong Kong Bioinformatics Center, The Chinese University of Hong Kong, Hong Kong.
authors.forename: Minghua
authors.initials: M
authors.lastname: Liu
authors.affiliation: Division of Infectious Diseases, Department of Medicine and Therapeutics, Prince of Wales Hospital, The Chinese University of Hong Kong.
authors.forename: Nelson
authors.initials: N
authors.lastname: Lee
authors.affiliation: HKU-AIDS Institute Shenzhen Research Laboratory and AIDS Clinical Research Laboratory, Shenzhen Key Laboratory of Infection and Immunity, Shenzhen Third People's Hospital, Shenzhen, China.
authors.forename: Xian
authors.initials: X
authors.lastname: Tang
authors.affiliation: HKU-AIDS Institute Shenzhen Research Laboratory and AIDS Clinical Research Laboratory, Shenzhen Key Laboratory of Infection and Immunity, Shenzhen Third People's Hospital, Shenzhen, China.
authors.forename: Hui
authors.initials: H
authors.lastname: Wang
authors.affiliation: AIDS Institute, The University of Hong Kong, Hong Kong.
authors.forename: Li
authors.initials: L
authors.lastname: Liu
authors.affiliation: AIDS Institute, The University of Hong Kong, Hong Kong.
authors.forename: Zhiwei
authors.initials: Z
authors.lastname: Chen
authors.affiliation: Institute Pasteur of Shanghai, Chinese Academy of Sciences, Shanghai, China.
authors.forename: Chiyu
authors.initials: C
authors.lastname: Zhang
authors.affiliation: Institute Pasteur of Shanghai, Chinese Academy of Sciences, Shanghai, China.
authors.forename: Jianhua
authors.initials: J
authors.lastname: Wang
authors.affiliation: 1] School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong [2] Hong Kong Bioinformatics Center, The Chinese University of Hong Kong, Hong Kong [3] Centre for Microbial Genomics and Proteomics, The Chinese University of Hong Kong, Hong Kong.
authors.forename: Stephen
authors.initials: S
authors.lastname: Kwok-Wing Tsui
mesh_terms: D000293:Adolescent; D002460:Cell Line; D018899:CpG Islands; D019175:DNA Methylation; D015536:Down-Regulation; D044127:Epigenesis, Genetic; D057890:Epigenomics; D005260:Female; D020869:Gene Expression Profiling; D005786:Gene Expression Regulation; D015894:Genome, Human; D015658:HIV Infections / Q000235:genetics* / Q000821:virology; D015497:HIV-1 / Q000502:physiology*; D006801:Humans; D018976:Insulin-Like Growth Factor Binding Protein 6 / Q000235:genetics*; D036961:Matrix Attachment Region Binding Proteins / Q000235:genetics*; D011401:Promoter Regions, Genetic; D015203:Reproducibility of Results; D013601:T-Lymphocytes / Q000378:metabolism / Q000821:virology; D014157:Transcription Factors / Q000235:genetics*; D014430:Twins, Monozygotic; D019562:Viral Load
chemical_list: D018976:Insulin-Like Growth Factor Binding Protein 6; D036961:Matrix Attachment Region Binding Proteins; C521297:SATB2 protein, human; D014157:Transcription Factors