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Proteo-Transcriptomic Dynamics of Cellular Response to HIV-1 Infection.

Monica Golumbeanu1,2, Sébastien Desfarges3,4, Céline Hernandez5,6

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This study reveals 388 host genes critical for HIV-1 replication, uncovering new virus-host interactions. The findings offer a dynamic catalog of host responses to human immunodeficiency virus type 1 (HIV-1) infection.

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Area of Science:

  • Virology
  • Molecular Biology
  • Immunology

Background:

  • Human immunodeficiency virus type 1 (HIV-1) infection involves intricate interactions between the virus and host cell machinery.
  • The virus manipulates host cells to facilitate its replication and evade immune responses.

Purpose of the Study:

  • To investigate the dynamic host response during HIV-1 replication.
  • To identify key host genes and molecular processes involved in the virus-host interaction.

Main Methods:

  • Systematic measurement of transcriptomic, proteomic, and phosphoproteomic changes in infected and uninfected SupT1 CD4+ T cells across five time points.
  • Clustering of host genes based on temporal expression patterns using a Gaussian mixed-effects model (TMixClust package).

Main Results:

  • Identification of a proteo-transcriptomic gene expression signature comprising 388 host genes specific to HIV-1 replication.
  • Functional analyses confirmed known gene roles and revealed novel interactions in signal transduction, metabolism, cell cycle, and immune response.
  • Development of PEACHi2.0, an R/Shiny application, to provide access to the dynamic host response data.

Conclusions:

  • The study provides a comprehensive catalog of dynamic host responses to HIV-1 infection.
  • Identified host genes and pathways offer new targets for understanding and potentially combating HIV-1.
  • PEACHi2.0 serves as a valuable resource for researchers studying virus-host interactions.