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IRF4 instructs effector Treg differentiation and immune suppression in human cancer
Giorgia Alvisi, … , Giulia Veronesi, Enrico Lugli
Giorgia Alvisi, … , Giulia Veronesi, Enrico Lugli
Published March 3, 2020
Citation Information: J Clin Invest. 2020;130(6):3137-3150. https://doi.org/10.1172/JCI130426.
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Research Article Immunology Oncology

IRF4 instructs effector Treg differentiation and immune suppression in human cancer

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Abstract

The molecular mechanisms responsible for the high immunosuppressive capacity of CD4+ Tregs in tumors are not well known. High-dimensional single-cell profiling of T cells from chemotherapy-naive individuals with non–small-cell lung cancer identified the transcription factor IRF4 as specifically expressed by a subset of intratumoral CD4+ effector Tregs with superior suppressive activity. In contrast to the IRF4– counterparts, IRF4+ Tregs expressed a vast array of suppressive molecules, and their presence correlated with multiple exhausted subpopulations of T cells. Integration of transcriptomic and epigenomic data revealed that IRF4, either alone or in combination with its partner BATF, directly controlled a molecular program responsible for immunosuppression in tumors. Accordingly, deletion of Irf4 exclusively in Tregs resulted in delayed tumor growth in mice while the abundance of IRF4+ Tregs correlated with poor prognosis in patients with multiple human cancers. Thus, a common mechanism underlies immunosuppression in the tumor microenvironment irrespective of the tumor type.

Authors

Giorgia Alvisi, Jolanda Brummelman, Simone Puccio, Emilia M.C. Mazza, Elisa Paoluzzi Tomada, Agnese Losurdo, Veronica Zanon, Clelia Peano, Federico S. Colombo, Alice Scarpa, Marco Alloisio, Ajithkumar Vasanthakumar, Rahul Roychoudhuri, Marinos Kallikourdis, Massimiliano Pagani, Egesta Lopci, Pierluigi Novellis, Jonas Blume, Axel Kallies, Giulia Veronesi, Enrico Lugli

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Figure 2

Transcriptional and functional profiling defines the effector and enhanced suppressive nature of IRF4+ Tregs.

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Transcriptional and functional profiling defines the effector and enhanc...
(A) Representative CCR8 and ICOS expression in tumor-infiltrating CD25hiCD127lo Treg subsets defined by IRF4 expression and t percentage of IRF4 expression in tumor-infiltrating Tregs gated as CCR8–ICOS– or CCR8+ICOS+. (B) Heatmap of differentially expressed genes (DEGs) in the FACS-sorted CCR8+ICOS+ versus ICOS–CCR8– tumor-infiltrating Tregs, as obtained by RNA-seq (FDR < 0.05). Selected DEGs are indicated. For some genes, protein names are indicated. (C) Hallmark gene sets (MsigDB; as obtained by GSEA) significantly enriched in cells sorted as in B. (D) Transcription factor binding motif (TFBM) enrichment analysis by pScan of RNA-seq data obtained as in B. Colored dots indicate significant hits. (E) CFSE-labeled CD4+ CD25– T (Tconv) cells dilution from a representative blood sample. Tconv cells were cocultured with Suppression Inspector MACSiBead beads and different ratios of intratumoral Treg subsets for 5 days. Data are representative of 5 independent experiments. (F) Tumor volumes in FoxP3EGFP-cre-ERT2(control) (n = 7) or Irf4fl/flFoxP3EGFP-cre-ERT2 (n = 5) mice following the administration of tamoxifen. Tumor curves in individual mice and mean ± SEM of the same cohort are shown. **P < 0.01, paired Student’s t test.

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ISSN: 0021-9738 (print), 1558-8238 (online)

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