Differential expression of lncRNAs during the HIV replication cycle: an underestimated layer in the HIV-host interplay.

Details

Ressource 1Download: srep36111.pdf (1997.49 [Ko])
State: Public
Version: Final published version
Serval ID
serval:BIB_7890F784121F
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Differential expression of lncRNAs during the HIV replication cycle: an underestimated layer in the HIV-host interplay.
Journal
Scientific reports
Author(s)
Trypsteen W., Mohammadi P., Van Hecke C., Mestdagh P., Lefever S., Saeys Y., De Bleser P., Vandesompele J., Ciuffi A., Vandekerckhove L., De Spiegelaere W.
ISSN
2045-2322 (Electronic)
ISSN-L
2045-2322
Publication state
Published
Issued date
26/10/2016
Peer-reviewed
Oui
Volume
6
Pages
36111
Language
english
Notes
Publication types: Journal Article ; Research Support, Non-U.S. Gov't
Publication Status: epublish
Abstract
Studying the effects of HIV infection on the host transcriptome has typically focused on protein-coding genes. However, recent advances in the field of RNA sequencing revealed that long non-coding RNAs (lncRNAs) add an extensive additional layer to the cell's molecular network. Here, we performed transcriptome profiling throughout a primary HIV infection in vitro to investigate lncRNA expression at the different HIV replication cycle processes (reverse transcription, integration and particle production). Subsequently, guilt-by-association, transcription factor and co-expression analysis were performed to infer biological roles for the lncRNAs identified in the HIV-host interplay. Many lncRNAs were suggested to play a role in mechanisms relying on proteasomal and ubiquitination pathways, apoptosis, DNA damage responses and cell cycle regulation. Through transcription factor binding analysis, we found that lncRNAs display a distinct transcriptional regulation profile as compared to protein coding mRNAs, suggesting that mRNAs and lncRNAs are independently modulated. In addition, we identified five differentially expressed lncRNA-mRNA pairs with mRNA involvement in HIV pathogenesis with possible cis regulatory lncRNAs that control nearby mRNA expression and function. Altogether, the present study demonstrates that lncRNAs add a new dimension to the HIV-host interplay and should be further investigated as they may represent targets for controlling HIV replication.
Keywords
CD4-Positive T-Lymphocytes/cytology, CD4-Positive T-Lymphocytes/metabolism, Gene Expression Profiling, Gene Regulatory Networks, HIV/physiology, HIV Infections/genetics, HIV Infections/pathology, HIV Infections/virology, Humans, Oligonucleotide Array Sequence Analysis, RNA, Long Noncoding/genetics, RNA, Long Noncoding/metabolism, RNA, Messenger/metabolism, Virus Replication/genetics
Pubmed
Web of science
Open Access
Yes
Create date
01/11/2016 18:41
Last modification date
20/08/2019 14:35
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