Evidence map›Paper›PMID 39353439›Full record

ArticleImmunity2024

Antiviral innate immune memory in alveolar macrophages following SARS-CoV-2 infection ameliorates secondary influenza A virus disease.

Alexander Lercher, Jin-Gyu Cheong, Michael J Bale, Chenyang Jiang, Hans-Heinrich Hoffmann, Alison W Ashbrook, Tyler Lewy, Yue S Yin, Corrine Quirk, Emma J DeGrace and 4 more

Abstract read
In one paragraph

Article in Immunity, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers.

0numbers the graph read from it
0cells of the map it votes in
51citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

51 citing papers in PubMed.

  1. Article
  2. Monocytes in pneumonia: Functional plasticity and innate memory (Review).International journal of molecular medicine · 2026
    Review
  3. Article
  4. Review
  5. Review
  6. Macrophage heterogeneity in human secondary lymphoid organs.Clinical science (London, England : 1979) · 2026
    Review
  7. Review
  8. Article
  9. Article
  10. Article
  11. Review
  12. Article
  13. Review
  14. Trained Memory of Uterine Macrophages Improves Subsequent Pregnancy Outcomes.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026
    Article
  15. Review
  16. Immune cell disorder in viral pneumonia.Journal of translational medicine · 2026
    Review
  17. Article
  18. Review
  19. Article
  20. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

14 authors.

Alexander LercherLaboratory of Virology and Infectious Disease, The Rockefeller University, New York, NY 10065, USA. Electronic address: alercher@rockefeller.edu.
Jin-Gyu CheongDepartment of Pathology and Laboratory Medicine, Laboratory of Epigenetics and Immunity, Weill Cornell Medicine, New York, NY 10065, USA; Immunology and Microbial Pathogenesis Program, Weill Cornell Medicine, New York, NY 10065, USA.
Michael J BaleDepartment of Pathology and Laboratory Medicine, Laboratory of Epigenetics and Immunity, Weill Cornell Medicine, New York, NY 10065, USA; Immunology and Microbial Pathogenesis Program, Weill Cornell Medicine, New York, NY 10065, USA.
Chenyang JiangDepartment of Pathology and Laboratory Medicine, Laboratory of Epigenetics and Immunity, Weill Cornell Medicine, New York, NY 10065, USA; BCMB Allied Program, Weill Cornell Graduate School of Medical Sciences, New York, NY 10065, USA.
Hans-Heinrich HoffmannLaboratory of Virology and Infectious Disease, The Rockefeller University, New York, NY 10065, USA.
Alison W AshbrookLaboratory of Virology and Infectious Disease, The Rockefeller University, New York, NY 10065, USA.
Tyler LewyLaboratory of Virology and Infectious Disease, The Rockefeller University, New York, NY 10065, USA.
Yue S YinLaboratory of Virology and Infectious Disease, The Rockefeller University, New York, NY 10065, USA.
Corrine QuirkLaboratory of Virology and Infectious Disease, The Rockefeller University, New York, NY 10065, USA.
Emma J DeGraceDepartment of Microbiology, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Luis ChiribogaDepartment of Pathology, New York University Medical Center, New York, NY 10016, USA; Center for Biospecimen Research and Development, New York, NY 10016, USA.
Brad R RosenbergDepartment of Microbiology, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Steven Z JosefowiczDepartment of Pathology and Laboratory Medicine, Laboratory of Epigenetics and Immunity, Weill Cornell Medicine, New York, NY 10065, USA; Immunology and Microbial Pathogenesis Program, Weill Cornell Medicine, New York, NY 10065, USA. Electronic address: szj2001@med.cornell.edu.
Charles M RiceLaboratory of Virology and Infectious Disease, The Rockefeller University, New York, NY 10065, USA. Electronic address: ricec@rockefeller.edu.

Funding

Dynamic regulatory network models of human response to influenza virusU01AI150748 · NIAID · UNIVERSITY OF CALIFORNIA-IRVINE · PI MARAZZI, IVAN, MIRALDI, EMILY · 2020 to 2024
$5.8M
Histone Variant H3.3 as a Transcription Rheostat in the Immune SystemR01AI148416 · NIAID · WEILL MEDICAL COLL OF CORNELL UNIV · PI Steven Zvi Josefowicz · 2020 to 2026
$4.6M
Next Generation Resolution of Antiviral Gene NetworksR01AI151029 · NIAID · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI Dusan Bogunovic, Brad Rosenberg · 2020 to 2026
$4.2M
Tri-Institutional PhD Program in Computational Biology & MedicineT32GM132083 · NIGMS · WEILL MEDICAL COLL OF CORNELL UNIV · PI Doron Betel, Iman Hajirasouliha · 2020 to 2026
$3.6M
Tracking SARS-CoV-2 one molecule at a time: Spatiotemporal investigation of coronavirus replication dynamics and host response in single cells in vitro and in vivoR01AI161444 · NIAID · ROCKEFELLER UNIVERSITY · PI Charles M Rice · 2022 to 2026
$3.1M
A clear view of encephalitis: a single cell approach to determine the basis of flaviviral pathogenesis in the central nervous systemR01AI158676 · NIAID · ROCKEFELLER UNIVERSITY · PI Charles M Rice · 2022 to 2026
$3.1M
COVID and Translational Science supercomputer (CATS)S10OD030463 · OD · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI KOVATCH, PATRICIA · 2021 to 2021
$2.0M
NIAID NIH HHS R01 AI148416NIAID NIH HHS R01 AI151029NIAID NIH HHS R01 AI158676NIAID NIH HHS R01 AI161444NIAID NIH HHS U01 AI150748NIGMS NIH HHS T32 GM132083NIH HHS S10 OD030463
6 · The paper itself

Abstract

Pathogen encounter can result in epigenetic remodeling that shapes disease caused by heterologous pathogens. Here, we examined innate immune memory in the context of commonly circulating respiratory viruses. Single-cell analyses of airway-resident immune cells in a disease-relevant murine model of SARS-CoV-2 recovery revealed epigenetic reprogramming in alveolar macrophages following infection. Post-COVID-19 human monocytes exhibited similar epigenetic signatures. In airway-resident macrophages, past SARS-CoV-2 infection increased activity of type I interferon (IFN-I)-related transcription factors and epigenetic poising of antiviral genes. Viral pattern recognition and canonical IFN-I signaling were required for the establishment of this innate immune memory and augmented secondary antiviral responses. Antiviral innate immune memory mounted by airway-resident macrophages post-SARS-CoV-2 was necessary and sufficient to ameliorate secondary disease caused by influenza A virus and curtailed hyperinflammatory dysregulation and mortality. Our findings provide insights into antiviral innate immune memory in the airway that may facilitate the development of broadly effective therapeutic strategies.

Indexed as

COVID-19Immunity, InnateImmunologic MemoryInfluenza A virusMacrophages, AlveolarOrthomyxoviridae InfectionsSARS-CoV-2AnimalsDisease Models, AnimalEpigenesis, GeneticHumansInfluenza, HumanInterferon Type IMiceMice, Inbred C57BLTrained ImmunityInterferon Type Ialveolar macrophagesepigenetic memoryimmunologyinfluenzainnate immune memorylung diseaserespiratory virusSARS-CoV-2trained immunityviral infection

Identifiers

PMID39353439
PMCPMC11563926

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.