Whole genome methylation array reveals the down-regulation of IGFBP6 and SATB2 by HIV-1

Yinfeng Zhang, Sai Kam Li, Kevin Yi Yang, Minghua Liu, Nelson Lee, Xian Tang, Hui Wang, Li Liu, Zhiwei Chen, Chiyu Zhang, Jianhua Wang, Stephen Kwok Wing Tsui

Research output: Contribution to journalArticle

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.

Original languageEnglish (US)
Article number10806
JournalScientific reports
Volume5
DOIs
StatePublished - Jun 3 2015
Externally publishedYes

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Methylation
HIV-1
Down-Regulation
HIV
Genome
Acquired Immunodeficiency Syndrome
DNA Methylation
Monozygotic Twins
Methyltransferases
Oligonucleotide Array Sequence Analysis
Immunoprecipitation
Genes
HIV Infections
Viruses
T-Lymphocytes
Cell Line
DNA

ASJC Scopus subject areas

  • General

Cite this

Whole genome methylation array reveals the down-regulation of IGFBP6 and SATB2 by HIV-1. / Zhang, Yinfeng; Li, Sai Kam; Yi Yang, Kevin; Liu, Minghua; Lee, Nelson; Tang, Xian; Wang, Hui; Liu, Li; Chen, Zhiwei; Zhang, Chiyu; Wang, Jianhua; Tsui, Stephen Kwok Wing.

In: Scientific reports, Vol. 5, 10806, 03.06.2015.

Research output: Contribution to journalArticle

Zhang, Y, Li, SK, Yi Yang, K, Liu, M, Lee, N, Tang, X, Wang, H, Liu, L, Chen, Z, Zhang, C, Wang, J & Tsui, SKW 2015, 'Whole genome methylation array reveals the down-regulation of IGFBP6 and SATB2 by HIV-1', Scientific reports, vol. 5, 10806. https://doi.org/10.1038/srep10806
Zhang, Yinfeng ; Li, Sai Kam ; Yi Yang, Kevin ; Liu, Minghua ; Lee, Nelson ; Tang, Xian ; Wang, Hui ; Liu, Li ; Chen, Zhiwei ; Zhang, Chiyu ; Wang, Jianhua ; Tsui, Stephen Kwok Wing. / Whole genome methylation array reveals the down-regulation of IGFBP6 and SATB2 by HIV-1. In: Scientific reports. 2015 ; Vol. 5.
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