Hypoxia inducible factors regulate Pneumovirus replication by enhancing innate immune sensing

Ha, J.; Sharma, P.; Ta, S.; Tsukuda, S.; Harris, J. M.; Penrice-Randal, R.; Bentley, E.; Kirby, A.; Mega, D. F.; Matthews, D. A.; Balfe, P.; Rehwinkel, J.; Kipar, A.; Stewart, J. P.; McKeating, J. A.; Wing, P. A. C.

doi:10.1101/2025.08.12.669926

bioRxiv · 10.1101/2025.08.12.669926

Hypoxia inducible factors regulate Pneumovirus replication by enhancing innate immune sensing

Ha, J.·Sharma, P.·Ta, S.·Tsukuda, S.·Harris, J. M.·Penrice-Randal, R.·Bentley, E.·Kirby, A.·Mega, D. F.·Matthews, D. A.·Balfe, P.·Rehwinkel, J.·Kipar, A.·Stewart, J. P.·McKeating, J. A.·Wing, P. A. C.

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Abstract

The immune mechanisms responsible for protection and pathogenesis in pneumoviral infection are not well defined. We demonstrated that pharmacological activation of the hypoxic inducible factor (HIF) signalling axis using Daprodustat limited viral replication through enhanced immune signalling. Transcriptomic analysis revealed HIF augmented activation of innate immune response genes, including interferon-stimulated gene 15 (Isg15), in the lung and spleen of mice infected with pneumonia virus of mice (PVM). In human respiratory syncytial virus (hRSV) infected airway epithelial cells, Daprodustat inhibited viral replication and enhanced ISG15 expression in a HIF-dependent manner. Importantly, inhibition of type I interferon signalling or the RIG-I sensing pathway abrogated the antiviral activity of HIF. Moreover, Daprodustat increased interferon signalling in response to viral RNA, suggesting that HIF inhibits pneumovirus replication through enhancing viral RNA sensing. Mechanistically, Daprodustat reduced N6-methyladenosine modification of viral RNA through upregulation of RNA demethylases, promoting detection by innate immune sensors. This study highlights the intricate interplay between hypoxia and antiviral immunity and offers valuable insights into pneumovirus-host interactions and potential therapeutic interventions. SIGNIFICANCE STATEMENTThis study explores the role of the hypoxic inducible factor (HIF) signalling pathway in limiting pneumoviral infections, such as respiratory syncytial virus (hRSV) and pneumonia virus of mice (PVM). Using Daprodustat, a clinically approved activator of HIF signalling we demonstrated that stimulation of this pathway enhanced innate immune signalling and limited viral replication. Transcriptomic analysis showed that HIF promoted innate immune response genes in mice infected with PVM and human airway epithelial cells infected with hRSV. Importantly, inhibition of type I interferon signalling or the RIG-I sensing pathway abrogated the antiviral activity of HIF. We uncovered a role for HIF to regulate the levels of N6-methyladenosine modification of viral RNA transcripts, resulting in the increased activation of nucleic acid sensing.

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Ha, J., Sharma, P., Ta, S., Tsukuda, S., Harris, J. M., Penrice-Randal, R., Bentley, E., Kirby, A., Mega, D. F., Matthews, D. A., Balfe, P., Rehwinkel, J., Kipar, A., Stewart, J. P., McKeating, J. A., Wing, P. A. C.. 2025-08-12. Hypoxia inducible factors regulate Pneumovirus replication by enhancing innate immune sensing. https://doi.org/10.1101/2025.08.12.669926

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