The proteasome regulator PSME4 drives immune evasion and abrogates anti-tumor immunity in NSCLC

Javitt, A.; Shmueli, M. D.; Kramer, M. P.; Kolodziejczyk, A. A.; Cohen, I. J.; Kamer, I.; Litchfield, K.; Bab-Dinitz, E.; Zadok, O.; Neiens, V.; Ulman, A.; Radomir, L.; Wolf-Levy, H.; Eisenberg-Lerner, A.; Kacen, A.; Alon, M.; Toste Rego, A.; Stacher-Priehse, E.; Linder, M.; Koch, I.; Bar, J.; Swanton, C.; Samuels, Y.; Levin, Y.; C. A. da Fonseca, P.; Elinav, E.; Friedman, N.; Meiners, S.; Merbl, Y.

doi:10.1101/2021.10.24.464690

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bioRxiv · 10.1101/2021.10.24.464690

The proteasome regulator PSME4 drives immune evasion and abrogates anti-tumor immunity in NSCLC

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Abstract

Protein degradation by proteasomes is important for the immune response against tumors. Antigens generated by the proteasome promote immune cell infiltration into tumors and improve tumors responses to immunotherapy. For example, immunoproteasomes - a subset of proteasomes induced by inflammatory signals - may improve the response of melanomas to immune checkpoint inhibitors (ICI) by eliciting tumor inflammation. Yet, it is unclear whether and how protein degradation by proteasomes impacts cancer progression and contributes to immune evasion and resistance. Here, we profile the proteasome-cleaved peptides in lung cancers and find that PSME4 serves as a novel inhibitory regulator of the immunoproteasome, playing an anti-inflammatory role in cancer. Biochemical assays combined with scRNA-seq, immunopeptidomics and in vivo analyses demonstrate that PSME4 promotes an immunosuppressive environment around the tumor and abrogates anti-tumor immunity by inhibiting antigen presentation and attenuating tumor inflammation. Furthermore, we find that PSME4 expression is correlated with responsiveness to ICI across several cancer types. Our findings suggest that PSME4-mediated regulation of proteasome activity is a novel mechanism of immune evasion in non-small-cell lung carcinoma and may be targeted therapeutically for restoring anti-tumor immunity. Graphical Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=139 SRC="FIGDIR/small/464690v1_ufig1.gif" ALT="Figure 1"> View larger version (39K): org.highwire.dtl.DTLVardef@e87910org.highwire.dtl.DTLVardef@641843org.highwire.dtl.DTLVardef@175092corg.highwire.dtl.DTLVardef@ad34c2_HPS_FORMAT_FIGEXP M_FIG C_FIG HighlightsO_LIMapping the degradation landscape in Non-Small Cell Lung Cancer (NSCLC) uncovers altered proteasome activity and composition C_LIO_LIProteasome regulator PSME4 plays an anti-inflammatory role in NSCLC by attenuating immunoproteasome activity C_LIO_LIPSME4 restricts tumor antigen presentation and cytokine secretion, defining a cold tumor environment C_LIO_LIPSME4 drives tumor immune evasion and is associated with resistance to immunotherapy C_LI

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Javitt, A., Shmueli, M. D., Kramer, M. P., Kolodziejczyk, A. A., Cohen, I. J., Kamer, I., Litchfield, K., Bab-Dinitz, E., Zadok, O., Neiens, V., Ulman, A., Radomir, L., Wolf-Levy, H., Eisenberg-Lerner, A., Kacen, A., Alon, M., Toste Rego, A., Stacher-Priehse, E., Linder, M., Koch, I., Bar, J., Swanton, C., Samuels, Y., Levin, Y., C. A. da Fonseca, P., Elinav, E., Friedman, N., Meiners, S., Merbl, Y.. 2021-10-24. The proteasome regulator PSME4 drives immune evasion and abrogates anti-tumor immunity in NSCLC. https://doi.org/10.1101/2021.10.24.464690

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