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      A single-amino acid substitution in the adaptor LAT accelerates TCR proofreading kinetics and alters T-cell selection, maintenance and function

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          Abstract

          Mature T cells must discriminate between brief interactions with self-peptides and prolonged binding to agonists. The kinetic proofreading model posits that certain T-cell antigen receptor signaling nodes serve as molecular timers to facilitate such discrimination. However, the physiological significance of this regulatory mechanism and the pathological consequences of disrupting it are unknown. Here we report that accelerating the normally slow phosphorylation of the linker for activation of T cells (LAT) residue Y136 by introducing an adjacent Gly135Asp alteration (LAT G135D) disrupts ligand discrimination in vivo. The enhanced self-reactivity of LAT G135D T cells triggers excessive thymic negative selection and promotes T-cell anergy. During Listeria infection, LAT G135D T cells expand more than wild-type counterparts in response to very weak stimuli but display an imbalance between effector and memory responses. Moreover, despite their enhanced engagement of central and peripheral tolerance mechanisms, mice bearing LAT G135D show features associated with autoimmunity and immunopathology. Our data reveal the importance of kinetic proofreading in balancing tolerance and immunity.

          Abstract

          Lo and colleagues provide evidence for the TCR kinetic proofreading model by LAT Gly135Asp alteration to reveal functional consequences of altered kinetics in TCR activation in thymic selection and mature T-cell responses.

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          Most cited references49

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          T cell receptor antagonist peptides induce positive selection.

          We have used organ culture of fetal thymic lobes from T cell receptor (TCR) transgenic beta 2M(-/-) mice to study the role of peptides in positive selection. The TCR used was from a CD8+ T cell specific for ovalbumin 257-264 in the context of Kb. Several peptides with the ability to induce positive selection were identified. These peptide-selected thymocytes have the same phenotype as mature CD8+ T cells and can respond to antigen. Those peptides with the ability to induce positive selection were all variants of the antigenic peptide and were identified as TCR antagonist peptides for this receptor. One peptide tested, E1, induced positive selection on the beta 2M(-/-) background but negative selection on the beta 2M(+/-) background. These results show that the process of positive selection is exquisitely peptide specific and sensitive to extremely low ligand density and support the notion that low efficacy ligands mediate positive selection.
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            TOX transcriptionally and epigenetically programs CD8 + T cell exhaustion

            SUMMARY Exhausted CD8+ T cells (TEX) in chronic infections and cancer have limited effector function, high inhibitory receptor co-expression and extensive transcriptional changes compared to effector (TEFF) or memory (TMEM) CD8+ T cells. TEX are important clinical targets of checkpoint blockade and other immunotherapies. Epigenetically, TEX are a distinct immune subset, with a unique chromatin landscape compared to TEFF and TMEM. However, the mechanisms governing the transcriptional and epigenetic development of TEX remain unknown. Here, we identify the HMG-box transcription factor TOX as a central regulator of TEX. TOX is largely dispensable for TEFF and TMEM formation, but is critical for exhaustion and without TOX TEX do not form. TOX is induced by calcineurin and NFAT2 and operates in a feed-forward loop to become calcineurin independent and sustained in TEX. Thus, robust TOX expression results in commitment to TEX by translating persistent stimulation into a distinct TEX transcriptional and epigenetic developmental program.
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              Transcription factors of the NFAT family: regulation and function.

              As targets for the immunosuppressive drugs cyclosporin A and FK506, transcription factors of the NFAT (nuclear factor of activated T cells) family have been the focus of much attention. NFAT proteins, which are expressed in most immune-system cells, play a pivotal role in the transcription of cytokine genes and other genes critical for the immune response. The activity of NFAT proteins is tightly regulated by the calcium/calmodulin-dependent phosphatase calcineurin, a primary target for inhibition by cyclosporin A and FK506. Calcineurin controls the translocation of NFAT proteins from the cytoplasm to the nucleus of activated cells by interacting with an N-terminal regulatory domain conserved in the NFAT family. The DNA-binding domains of NFAT proteins resemble those of Rel-family proteins, and Rel and NFAT proteins show some overlap in their ability to bind to certain regulatory elements in cytokine genes. NFAT is also notable for its ability to bind cooperatively with transcription factors of the AP-1 (Fos/Jun) family to composite NFAT:AP-1 sites, found in the regulatory regions of many genes that are inducibly transcribed by immune-system cells. This review discusses recent data on the diversity of the NFAT family of transcription factors, the regulation of NFAT proteins within cells, and the cooperation of NFAT proteins with other transcription factors to regulate the expression of inducible genes.
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                Author and article information

                Contributors
                wan-lin.lo@path.utah.edu
                dietmar.zehn@tum.de
                arthur.weiss@ucsf.edu
                Journal
                Nat Immunol
                Nat Immunol
                Nature Immunology
                Nature Publishing Group US (New York )
                1529-2908
                1529-2916
                13 March 2023
                13 March 2023
                2023
                : 24
                : 4
                : 676-689
                Affiliations
                [1 ]GRID grid.223827.e, ISNI 0000 0001 2193 0096, Division of Microbiology and Immunology, Department of Pathology, , University of Utah School of Medicine, ; Salt Lake City, UT USA
                [2 ]GRID grid.6936.a, ISNI 0000000123222966, Division of Animal Physiology and Immunology, School of Life Sciences, , Technical University of Munich, ; Freising, Germany
                [3 ]GRID grid.51462.34, ISNI 0000 0001 2171 9952, Human Oncology and Pathogenesis Program, Department of Pathology and Laboratory Medicine, , Memorial Sloan Kettering Cancer Center, ; New York, NY USA
                [4 ]GRID grid.419609.3, ISNI 0000 0000 9261 240X, Department of Molecular Biology and Genetics, , Izmir Institute of Technology, ; Gulbahce, Turkey
                [5 ]GRID grid.223827.e, ISNI 0000 0001 2193 0096, Department of Pathology, , University of Utah School of Medicine, ; Salt Lake City, UT USA
                [6 ]GRID grid.266102.1, ISNI 0000 0001 2297 6811, Department of Microbiology and Immunology, , University of California San Francisco, ; San Francisco, CA USA
                [7 ]GRID grid.266102.1, ISNI 0000 0001 2297 6811, Division of Rheumatology, Rosalind Russell and Ephraim P. Engleman Arthritis Research Center, Department of Medicine, , University of California San Francisco, ; San Francisco, CA USA
                [8 ]GRID grid.266102.1, ISNI 0000 0001 2297 6811, Gladstone-UCSF Institute of Genomic Immunology, ; San Francisco, CA USA
                [9 ]GRID grid.499295.a, ISNI 0000 0004 9234 0175, Chan Zuckerberg Biohub, ; San Francisco, CA USA
                [10 ]GRID grid.266102.1, ISNI 0000 0001 2297 6811, Department of Medicine, , University of California San Francisco, ; San Francisco, CA USA
                [11 ]GRID grid.266102.1, ISNI 0000 0001 2297 6811, Diabetes Center, , University of California San Francisco, ; San Francisco, CA USA
                [12 ]GRID grid.47840.3f, ISNI 0000 0001 2181 7878, Innovative Genomics Institute, , University of California Berkeley, ; Berkeley, CA USA
                [13 ]GRID grid.266102.1, ISNI 0000 0001 2297 6811, UCSF Helen Diller Family Comprehensive Cancer Center, , University of California San Francisco, ; San Francisco, CA USA
                [14 ]GRID grid.266102.1, ISNI 0000 0001 2297 6811, Parker Institute for Cancer Immunotherapy, , University of California San Francisco, ; San Francisco, CA USA
                [15 ]GRID grid.266102.1, ISNI 0000 0001 2297 6811, Institute for Human Genetics, , University of California San Francisco, ; San Francisco, CA USA
                Author information
                http://orcid.org/0000-0002-9074-6847
                http://orcid.org/0000-0001-7431-9637
                http://orcid.org/0000-0003-3052-0253
                http://orcid.org/0000-0003-3138-0037
                http://orcid.org/0000-0002-2734-5776
                http://orcid.org/0000-0003-1393-8527
                http://orcid.org/0000-0002-2414-9024
                Article
                1444
                10.1038/s41590-023-01444-x
                10063449
                36914891
                8278124f-367e-4f05-bba9-64e9148e0d45
                © The Author(s) 2023

                Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 1 September 2022
                : 25 January 2023
                Funding
                Funded by: FundRef https://doi.org/10.13039/100006492, Division of Intramural Research, National Institute of Allergy and Infectious Diseases (Division of Intramural Research of the NIAID);
                Award ID: AI143960
                Award ID: AI137209
                Award ID: AI147641
                Award ID: AI167422
                Award ID: AI091580
                Award Recipient :
                Funded by: FundRef https://doi.org/10.13039/100008235, U of U | School of Medicine (University of Utah School of Medicine);
                Funded by: FundRef https://doi.org/10.13039/100007052, Memorial Sloan-Kettering Cancer Center (MSKCC);
                Funded by: FundRef https://doi.org/10.13039/501100004410, Türkiye Bilimsel ve Teknolojik Araştirma Kurumu (Scientific and Technological Research Council of Turkey);
                Award ID: TUBITAK-2232b 121C115
                Award Recipient :
                Funded by: FundRef https://doi.org/10.13039/100000884, Cancer Research Institute (CRI);
                Award ID: Lloyd J. Old STAR award
                Award Recipient :
                Funded by: FundRef https://doi.org/10.13039/100001787, Parker Foundation;
                Funded by: FundRef https://doi.org/10.13039/501100001659, Deutsche Forschungsgemeinschaft (German Research Foundation);
                Award ID: SFB1054
                Award ID: SFB1371
                Award Recipient :
                Funded by: FundRef https://doi.org/10.13039/100000011, Howard Hughes Medical Institute (HHMI);
                Categories
                Article
                Custom metadata
                © The Author(s), under exclusive licence to Springer Nature America, Inc. 2023

                Immunology
                signal transduction,immune tolerance,infection,t-cell receptor
                Immunology
                signal transduction, immune tolerance, infection, t-cell receptor

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