A novel proviral mechanism for the ISG, Shiftless, during human coronavirus infection

Shue, T. M.; Mourtzouchos, G.; Li, D.-Y.; Ong, Y. T.; Athanasiadis, A.; Bousali, M.; Sanders, M.; Spector, S. N.; Rivera-Bonilla, C.; Ndoye, K.; Levenson, K. C.; Cuba, J.; Harris, J.; Mieck, K.; Lan, S.; Kinast, V.; LeCher, J.; Le Pen, J.; Sarafianos, S. G.; Michailidis, E.

doi:10.64898/2026.10.16.759718

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bioRxiv · 10.64898/2026.10.16.759718

A novel proviral mechanism for the ISG, Shiftless, during human coronavirus infection

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Abstract

As highly pathogenic human coronaviruses continue to emerge from zoonotic sources, understanding how host intrinsic immune responses control infection is critical for preventing severe disease. The interferon (IFN) pathway induces antiviral effectors, including the interferon-stimulated gene (ISG) Shiftless (SHFL), which restricts -1 programmed ribosomal frameshifting during SARS-CoV-2 infection. Here, we investigate a novel proviral mechanism for SHFL using loss-of-function and gain-of-function approaches. Despite its established antiviral activity, SHFL enhanced infection by SARS-CoV-2 and the seasonal coronavirus HCoV-229E by increasing cellular susceptibility to infection. SHFL further promoted coronavirus infection by reducing cellular sensitivity to IFN, potentially through modulation of JAK/STAT signaling. Finally, we demonstrate that SHFL-mediated enhancement of baseline viral susceptibility is partially dependent on the domain previously implicated in its antiviral inhibition of -1 programmed ribosomal frameshifting. In contrast, SHFL-mediated regulation of IFN signaling is independent of this domain. Together, these findings establish SHFL as a dual-function ISG with distinct proviral and antiviral activities, highlighting the complex roles of innate immune effectors during coronavirus infection.

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Shue, T. M., Mourtzouchos, G., Li, D.-Y., Ong, Y. T., Athanasiadis, A., Bousali, M., Sanders, M., Spector, S. N., Rivera-Bonilla, C., Ndoye, K., Levenson, K. C., Cuba, J., Harris, J., Mieck, K., Lan, S., Kinast, V., LeCher, J., Le Pen, J., Sarafianos, S. G., Michailidis, E.. 2026-10-17. A novel proviral mechanism for the ISG, Shiftless, during human coronavirus infection. https://doi.org/10.64898/2026.10.16.759718

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