Molecular pathway of influenza pan-neuraminidase inhibitors resistance in an immunocompromised patient

Abed, Y.; Schibler, M.; Checkmahomed, L.; Carbonneau, J.; Venable, M.-C.; Giannotti, F.; Goncalves, A. R.; Kaiser, L.; Boivin, G.

doi:10.1101/768614

bioRxiv · 10.1101/768614

Molecular pathway of influenza pan-neuraminidase inhibitors resistance in an immunocompromised patient

Abed, Y.·Schibler, M.·Checkmahomed, L.·Carbonneau, J.·Venable, M.-C.·Giannotti, F.·Goncalves, A. R.·Kaiser, L.·Boivin, G.

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Abstract

Neuraminidase (NA) inhibitors (NAIs), including oseltamivir and zanamivir, play an important therapeutic role against influenza infections in immunocompromised patients. In such settings, however, NAI therapy may lead to the emergence of resistance involving mutations within the influenza surface genes. The aim of this study was to investigate the evolution of hemagglutinin (HA) and NA genes of influenza A(H1N1)pdm09 virus in an immunocompromised patient receiving oseltamivir then zanamivir therapies. Nasopharyngeal swabs (NPS) samples were collected between 01-27-2018 and 04-20-2018 from a hematopoietic stem cell transplant recipient. These included 11 samples collected either pre-therapy, during oseltamivir and zanamivir as well as after therapy. The A(H1N1)pdm09 HA/NA genes were sequenced. The H275Y NA substitution was quantified by droplet digital RT-PCR assay. A(H1N1)pdm09 recombinant viruses containing HA mutations were tested by HA elution experiments to investigate in vitro binding properties. Oseltamivir rapidly induced the H275Y NA mutation which constituted 98.33% of the viral population after 15 days of oseltamivir treatment. The related HA gene contained S135A and P183S substitutions within the receptor-binding site. After a switch to zanamivir, 275H/Y and 119E/G/D mixed populations were detected. In the last samples, the double H275Y-E119G NA variant dominated with S135A and P183S HA substitutions. This report confirms that oseltamivir can rapidly induce the emergence of the H275Y substitution in A(H1N1)pdm09 viruses and subsequent switch to zanamivir can lead to additional substitutions at codon E119 resulting in multi-drug resistance. Such data highlight the need for novel antiviral agents.

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Abed, Y., Schibler, M., Checkmahomed, L., Carbonneau, J., Venable, M.-C., Giannotti, F., Goncalves, A. R., Kaiser, L., Boivin, G.. 2019-09-16. Molecular pathway of influenza pan-neuraminidase inhibitors resistance in an immunocompromised patient. https://doi.org/10.1101/768614

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