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Degradation of IKAROS prevents epigenetic progression of T cell exhaustion in a novel antigen-specific assay

Tay, T.; Bommakanti, G.; Jaensch, E.; Gorthi, A.; Reddy, I.; Hu, Y.; Zhang, R.; Doshi, A.; Tan, S. L.; Brucklacher-Waldert, V.; Prickett, L.; Kurasawa, J.; Overstreet, M.; Criscione, S.; Buenrostro, J.; Mele, D.

2024-02-24 genomics
10.1101/2024.02.22.581548 bioRxiv
Show abstract

In cancer, chronic antigen stimulation drives effector T cells to exhaustion, limiting the efficacy of T cell therapies. Recent studies have demonstrated that epigenetic rewiring governs the transition of T cells from effector to exhausted states and makes a subset of exhausted T cells non-responsive to PD1 checkpoint blockade. Here, we describe an antigen-specific assay for T cell exhaustion that generates T cells that are phenotypically and transcriptionally similar to those found in human tumors. We performed a screen of human epigenetic regulators, identifying and validating IKAROS as a driver of T cell exhaustion. We found that the IKAROS degrader iberdomide prevents exhaustion by blocking chromatin remodeling at T cell effector enhancers and preserving binding of AP-1, NF-{kappa}B, and NFAT. Thus, our study uncovered a role for IKAROS as a driver of T cell exhaustion through epigenetic modulation, providing a rationale for the potential use of iberdomide in solid tumors to prevent T cell exhaustion. HighlightsO_LINovel in vitro assay generates antigen-specific exhausted T cells from human T cells C_LIO_LIIKAROS (IKZF1) is a key driver of T cell exhaustion C_LIO_LIIberdomide (IKZF1/3 degrader) prevents the progression of exhaustion C_LIO_LITF footprinting reveals IKAROS silences effector genes by inhibiting AP-1, NF-{kappa}B and NFAT binding C_LI

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