CRISPR screens identify targets to rescue age-related T cell dysfunction in cancer
Alex C.Y. CheniD, Keely Y. Ji, Cansu YerindeiD, Nelson H. KnudseniD, Kevin BiiD, Shumeng HaoiD, Vasyl ZhabotynskyiD, Daniela Martinez, Thomas James LaSalleiD, Kazuhiro TaguchiiD, Katherine H. XuiD, Elizabeth M. Seider, Marc A. SchwartziD, Maria ZschummeliD, Linda T. NiemaniD, Kathleen B. YatesiD, Francesca S. GazzanigaiD, Brian C. MilleriD, Thorsten R. MempeliD, Robert T. MangusoiD, Nir HacoheniD, Debattama R. SeniD
Abstract
Immune aging is being increasingly recognized as a critical barrier to effective cancer immunotherapy, as the aged tumor microenvironment (TME) drives T cell dysfunction and impairs immune control of cancer1-4. However, the key molecular drivers of this process as well as potential targets to rescue T cell dysfunction in aged tumors remain incompletely understood. Therefore, we performed in vivo single-cell CRISPR screens in CD8 T cells within aged tumors and tumor-draining lymph nodes (tdLNs). We identified Dusp5 and Zfp219 as key regulators of T cell persistence and effector differentiation in aged hosts. Loss of Dusp5, a negative regulator of ERK signaling, increased ERK1/2 phosphorylation and enhanced T cell proliferation in both young and aged tumors. In contrast, loss of Zfp219, a transcriptional repressor, induced epigenetic reprogramming of cytotoxic gene programs, thereby increasing granzyme secretion and enhancing antitumor immunity. Moreover, expression of the human ortholog gene ZNF219 is increased within intratumoral CD8 T cells in older cancer patients. High ZNF219 expression correlates with poorer survival following immune checkpoint blockade (ICB) and reduces persistence of human intratumoral T cells. Notably, Zfp219 ablation synergized with anti-PD-1 blockade in mice to expand effector-like CD8 T cells, leading to significantly enhanced anti-tumor immunity and tumor clearance in aged hosts. Together, these findings highlight Dusp5 and Zfp219 as critical drivers of age-related T cell dysfunction and as potential therapeutic targets to rejuvenate T cell antitumor immunity in older cancer patients.
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