Single-Cell RNA-Seq Reveals Transcriptional Heterogeneity in Latent and Reactivated HIV-Infected Cells

Monica Golumbeanu; Sara Cristinelli; Sylvie Rato; Miguel Munoz; Matthias Cavassini; Niko Beerenwinkel; Angela Ciuffi

doi:10.1016/j.celrep.2018.03.102

Single-Cell RNA-Seq Reveals Transcriptional Heterogeneity in Latent and Reactivated HIV-Infected Cells

Cell Rep. 2018 Apr 24;23(4):942-950. doi: 10.1016/j.celrep.2018.03.102.

Authors

Monica Golumbeanu¹, Sara Cristinelli², Sylvie Rato², Miguel Munoz², Matthias Cavassini³, Niko Beerenwinkel⁴, Angela Ciuffi⁵

Affiliations

¹ Department of Biosystems Science and Engineering, ETH Zurich, Basel 4058, Switzerland; SIB Swiss Institute of Bioinformatics, Basel 4058, Switzerland.
² Institute of Microbiology, Lausanne University Hospital and University of Lausanne, Lausanne 1011, Switzerland.
³ Service of Infectious Diseases, Department of Medicine, Lausanne University Hospital and University of Lausanne, Lausanne 1011, Switzerland.
⁴ Department of Biosystems Science and Engineering, ETH Zurich, Basel 4058, Switzerland; SIB Swiss Institute of Bioinformatics, Basel 4058, Switzerland. Electronic address: niko.beerenwinkel@bsse.ethz.ch.
⁵ Institute of Microbiology, Lausanne University Hospital and University of Lausanne, Lausanne 1011, Switzerland. Electronic address: angela.ciuffi@chuv.ch.

PMID: 29694901
DOI: 10.1016/j.celrep.2018.03.102

Abstract

Despite effective treatment, HIV can persist in latent reservoirs, which represent a major obstacle toward HIV eradication. Targeting and reactivating latent cells is challenging due to the heterogeneous nature of HIV-infected cells. Here, we used a primary model of HIV latency and single-cell RNA sequencing to characterize transcriptional heterogeneity during HIV latency and reactivation. Our analysis identified transcriptional programs leading to successful reactivation of HIV expression.

Keywords: HIV; cure; heterogeneity; inducible cell; latency; reactivation; scRNA-seq; signature; single cell; transcriptome.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Female
Gene Expression Regulation, Viral / physiology*
HIV Infections / genetics
HIV Infections / metabolism*
HIV-1 / physiology*
Humans
Male
Sequence Analysis, RNA*
Virus Activation / physiology*
Virus Latency / physiology*