Proteo-Transcriptomic Dynamics of Cellular Response to HIV-1 Infection.
CD4-Positive T-Lymphocytes
/ metabolism
Gene Expression Profiling
/ methods
HIV Infections
/ genetics
HIV-1
/ genetics
Host-Pathogen Interactions
/ genetics
Humans
Proteome
/ genetics
Proteomics
/ methods
Signal Transduction
Transcriptome
/ genetics
Virus Latency
/ genetics
Virus Replication
/ genetics
Journal
Scientific reports
ISSN: 2045-2322
Titre abrégé: Sci Rep
Pays: England
ID NLM: 101563288
Informations de publication
Date de publication:
18 01 2019
18 01 2019
Historique:
received:
04
09
2018
accepted:
14
11
2018
entrez:
20
1
2019
pubmed:
20
1
2019
medline:
14
4
2020
Statut:
epublish
Résumé
Throughout the HIV-1 replication cycle, complex host-pathogen interactions take place in the infected cell, leading to the production of new virions. The virus modulates the host cellular machinery in order to support its life cycle, while counteracting intracellular defense mechanisms. We investigated the dynamic host response to HIV-1 infection by systematically measuring transcriptomic, proteomic, and phosphoproteomic expression changes in infected and uninfected SupT1 CD4+ T cells at five time points of the viral replication process. By means of a Gaussian mixed-effects model implemented in the new R/Bioconductor package TMixClust, we clustered host genes based on their temporal expression patterns. We identified a proteo-transcriptomic gene expression signature of 388 host genes specific for HIV-1 replication. Comprehensive functional analyses of these genes confirmed the previously described roles of some of the genes and revealed novel key virus-host interactions affecting multiple molecular processes within the host cell, including signal transduction, metabolism, cell cycle, and immune system. The results of our analysis are accessible through a freely available, dedicated and user-friendly R/Shiny application, called PEACHi2.0. This resource constitutes a catalogue of dynamic host responses to HIV-1 infection that provides a basis for a more comprehensive understanding of virus-host interactions.
Identifiants
pubmed: 30659199
doi: 10.1038/s41598-018-36135-3
pii: 10.1038/s41598-018-36135-3
pmc: PMC6338737
doi:
Substances chimiques
Proteome
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
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