SARS-CoV-2-mediated dysregulation of metabolism and autophagy uncovers host-targeting antivirals

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalpeer-review

38 Scopus Citations
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  • Nils C. Gassen
  • Jan Papies
  • Thomas Bajaj
  • Jackson Emanuel
  • Frederik Dethloff
  • Robert Lorenz Chua
  • Jakob Trimpert
  • Nicolas Heinemann
  • Christine Niemeyer
  • Friderike Weege
  • Katja Hönzke
  • Tom Aschman
  • Daniel E. Heinz
  • Katja Weckmann
  • Tim Ebert
  • Andreas Zellner
  • Martina Lennarz
  • Emanuel Wyler
  • Simon Schroeder
  • Anja Richter
  • Daniela Niemeyer
  • Karen Hoffmann
  • Thomas F. Meyer
  • Frank L. Heppner
  • Victor M. Corman
  • Markus Landthaler
  • Andreas C. Hocke
  • Markus Morkel
  • Christian Conrad
  • Roland Eils
  • Helena Radbruch
  • Patrick Giavalisco
  • Christian Drosten
  • Marcel A. Müller


Original languageEnglish
Article number3818
Journal / PublicationNature Communications
Online published21 Jun 2021
Publication statusPublished - 2021



Viruses manipulate cellular metabolism and macromolecule recycling processes like autophagy. Dysregulated metabolism might lead to excessive inflammatory and autoimmune responses as observed in severe and long COVID-19 patients. Here we show that SARS-CoV-2 modulates cellular metabolism and reduces autophagy. Accordingly, compound-driven induction of autophagy limits SARS-CoV-2 propagation. In detail, SARS-CoV-2-infected cells show accumulation of key metabolites, activation of autophagy inhibitors (AKT1, SKP2) and reduction of proteins responsible for autophagy initiation (AMPK, TSC2, ULK1), membrane nucleation, and phagophore formation (BECN1, VPS34, ATG14), as well as autophagosome-lysosome fusion (BECN1, ATG14 oligomers). Consequently, phagophore-incorporated autophagy markers LC3B-II and P62 accumulate, which we confirm in a hamster model and lung samples of COVID-19 patients. Single-nucleus and single-cell sequencing of patient-derived lung and mucosal samples show differential transcriptional regulation of autophagy and immune genes depending on cell type, disease duration, and SARS-CoV-2 replication levels. Targeting of autophagic pathways by exogenous administration of the polyamines spermidine and spermine, the selective AKT1 inhibitor MK-2206, and the BECN1-stabilizing anthelmintic drug niclosamide inhibit SARS-CoV-2 propagation in vitro with IC50 values of 136.7, 7.67, 0.11, and 0.13 μM, respectively. Autophagy-inducing compounds reduce SARS-CoV-2 propagation in primary human lung cells and intestinal organoids emphasizing their potential as treatment options against COVID-19.

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SARS-CoV-2-mediated dysregulation of metabolism and autophagy uncovers host-targeting antivirals. / Gassen, Nils C.; Papies, Jan; Bajaj, Thomas; Emanuel, Jackson; Dethloff, Frederik; Chua, Robert Lorenz; Trimpert, Jakob; Heinemann, Nicolas; Niemeyer, Christine; Weege, Friderike; Hönzke, Katja; Aschman, Tom; Heinz, Daniel E.; Weckmann, Katja; Ebert, Tim; Zellner, Andreas; Lennarz, Martina; Wyler, Emanuel; Schroeder, Simon; Richter, Anja; Niemeyer, Daniela; Hoffmann, Karen; Meyer, Thomas F.; Heppner, Frank L.; Corman, Victor M.; Landthaler, Markus; Hocke, Andreas C.; Morkel, Markus; Osterrieder, Nikolaus; Conrad, Christian; Eils, Roland; Radbruch, Helena; Giavalisco, Patrick; Drosten, Christian; Müller, Marcel A.

In: Nature Communications, Vol. 12, 3818, 2021.

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalpeer-review

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