Differential expression of lncRNAs during the HIV replication cycle: an underestimated layer in the HIV-host interplay.
Details
Download: srep36111.pdf (1997.49 [Ko])
State: Public
Version: Final published version
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
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
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 19:41
Last modification date
20/08/2019 15:35