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Thymoproteasome and peptidic self

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Abstract

Positive selection of T cells in the thymus is induced by low-affinity TCR recognition of self-peptide-MHC complexes expressed by cortical thymic epithelial cells (cTECs). cTECs express a specialized type of proteasomes, the thymoproteasome, which generates a unique spectrum of MHC class I-associated peptides and plays a critical role in thymic positive selection of CD8+ T cells. However, it remains unclear how the thymoproteasome contributes to the thymic positive selection. More than 30 years ago, the “peptidic self” hypothesis proposed that TCRs recognize MHC-presented peptides only, without interacting with MHC molecules, which turned out to be incorrect. Interestingly, however, by implying that a set of MHC-associated peptides forms immunological self, this hypothesis also predicted that positive selection in the thymus is the primary immune response to “foreign epitope” peptides during T cell development. The thymoproteasome-dependent unique self-peptides may create those foreign epitope peptides displayed in the thymus for positive selection of T cells.

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References

  • Babbitt BP, Allen PM, Matsueda G, Haber E, Unanue ER (1985) Binding of immunogenic peptides to Ia histocompatibility molecules. Nature 317:359–361

    Article  CAS  PubMed  Google Scholar 

  • Bevan MJ (1977) In a radiation chimaera, host H-2 antigens determine immune responsiveness of donor cytotoxic cells. Nature 269:417–418

    Article  CAS  PubMed  Google Scholar 

  • Bjorkman PJ, Saper MA, Samraoui B, Bennett WS, Strominger JL, Wiley DC (1987) The foreign antigen binding site and T cell recognition regions of class I histocompatibility antigens. Nature 329:512–518

    Article  CAS  PubMed  Google Scholar 

  • Florea BI, Verdoes M, Li N, van der Linden WA, Geurink PP, van den Elst H, Hofmann T, de Ru A, van Veelen PA, Tanaka K, Sasaki K, Murata S, den Dulk H, Brouwer J, Ossendorp FA, Kisselev AF, Overkleeft HS (2010) Activity-based profiling reveals reactivity of the murine thymoproteasome-specific subunit β5t. Chem Biol 17:795–801

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Fulton RB, Hamilton SE, Xing Y, Best JA, Goldrath AW, Hogquist KA, Jameson SC (2015) The TCR’s sensitivity to self peptide-MHC dictates the ability of naive CD8+ T cells to respond to foreign antigens. Nat Immunol 16:107–117

    Article  CAS  PubMed  Google Scholar 

  • Garboczi DN, Ghosh P, Utz U, Fan QR, Biddison WE, Wiley DC (1996) Structure of the complex between human T-cell receptor, viral peptide and HLA-A2. Nature 384:134–141

    Article  CAS  PubMed  Google Scholar 

  • Garcia KC, Degano M, Pease LR, Huang M, Peterson PA, Teyton L, Wilson IA (1998) Structural basis of plasticity in T cell receptor recognition of a self peptide-MHC antigen. Science 279:1166–1172

    Article  CAS  PubMed  Google Scholar 

  • Gommeaux J, Grégoire C, Nguessan P, Richelme M, Malissen M, Guerder S, Malissen B, Carrier A (2009) Thymus-specific serine protease regulates positive selection of a subset of CD4+ thymocytes. Eur J Immunol 39:956–964

    Article  CAS  PubMed  Google Scholar 

  • Honey K, Nakagawa T, Peters C, Rudensky A (2002) Cathepsin L regulates CD4+ T cell selection independently of its effect on invariant chain: a role in the generation of positively selecting peptide ligands. J Exp Med 195:1349–1358

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Huber EM, Basler M, Schwab R, Heinemeyer W, Kirk CJ, Groettrup M, Groll M (2012) Immuno- and constitutive proteasome crystal structures reveal differences in substrate and inhibitor specificity. Cell 148:727–738

    Article  CAS  PubMed  Google Scholar 

  • Jerne NK (1971) The somatic generation of immune recognition. Eur J Immunol 1:1–9

    Article  CAS  PubMed  Google Scholar 

  • Katz DH, Hamaoka T, Dorf ME, Benacerraf B (1973) Cell interactions between histoincompatible T and B lymphocytes. The H-2 gene complex determines successful physiologic lymphocyte interactions. Proc Natl Acad Sci U S A 70:2624–2628

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Kincaid EZ, Murata S, Tanaka K, Rock KL (2016) Specialized proteasome subunits have an essential role in the thymic selection of CD8+ T cells. Nat Immunol 17:938–945

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Kisielow P, Teh HS, Blüthmann H, von Boehmer H (1988) Positive selection of antigen-specific T cells in thymus by restricting MHC molecules. Nature 335:730–733

    Article  CAS  PubMed  Google Scholar 

  • Klein L, Kyewski B (2000) “Promiscuous” expression of tissue antigens in the thymus: a key to T-cell tolerance and autoimmunity? J Mol Med 78:483–494

    Article  CAS  PubMed  Google Scholar 

  • Klein L, Klein T, Rüther U, Kyewski B (1998) CD4 T cell tolerance to human C-reactive protein, an inducible serum protein, is mediated by medullary thymic epithelium. J Exp Med 188:5–16

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Klein L, Kyewski B, Allen PM, Hogquist KA (2014) Positive and negative selection of the T cell repertoire: what thymocytes see (and don’t see). Nat Rev Immunol 14:377–391

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Kourilsky P, Claverie JM (1986) The peptidic self model: a hypothesis on the molecular nature of the immunological self. Ann Inst Pasteur Immunol 137D:3–21

    CAS  PubMed  Google Scholar 

  • Kourilsky P, Claverie JM (1989) MHC restriction, alloreactivity, and thymic education: a common link? Cell 56:327–329

    Article  CAS  PubMed  Google Scholar 

  • Mandl JN, Monteiro JP, Vrisekoop N, Germain RN (2013) T cell-positive selection uses self-ligand binding strength to optimize repertoire recognition of foreign antigens. Immunity 38:263–274

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Morris GP, Allen PM (2012) How the TCR balances sensitivity and specificity for the recognition of self and pathogens. Nat Immunol 13:121–128

    Article  CAS  PubMed  Google Scholar 

  • Murata S, Sasaki K, Kishimoto T, Niwa S, Hayashi H, Takahama Y, Tanaka K (2007) Regulation of CD8+ T cell development by thymus-specific proteasomes. Science 316:1349–1353

    Article  CAS  PubMed  Google Scholar 

  • Murata S, Takahama Y, Tanaka K (2008) Thymoproteasome: probable role in generating positively selecting peptides. Curr Opin Immunol 20:192–196

    Article  CAS  PubMed  Google Scholar 

  • Murata S, Takahama Y, Kasahara M, Tanaka K (2018) The immunoproteasome and thymoproteasome: functions, evolution, and human disease. Nat Immunol 19:923–931

  • Nakagawa T, Roth W, Wong P, Nelson A, Farr A, Deussing J, Villadangos JA, Ploegh H, Peters C, Rudensky AY, Cathepsin L (1998) Critical role in ii degradation and CD4 T cell selection in the thymus. Science 280:450–453

    Article  CAS  PubMed  Google Scholar 

  • Nikolic-Zujic J, Bevan MJ (1990) Role of self-peptides in positively selecting the T-cell repertoire. Nature 344:65–67

    Article  Google Scholar 

  • Nitta T, Murata S, Sasaki K, Fujii H, Ripen AM, Ishimaru N, Koyasu S, Tanaka K, Takahama Y (2010) Thymoproteasome shapes immunocompetent repertoire of CD8+ T cells. Immunity 32:29–40

    Article  CAS  PubMed  Google Scholar 

  • Ohigashi I, Zuklys S, Sakata M, Mayer CE, Zhanybekova S, Murata S, Tanaka K, Holländer GA, Takahama Y (2013) Aire-expressing thymic medullary epithelial cells originate from β5t-expressing progenitor cells. Proc Natl Acad Sci U S A 110:9885–9890

    Article  PubMed  PubMed Central  Google Scholar 

  • Palmer E, Naeher D (2009) Affinity threshold for thymic selection through a T-cell receptor-co-receptor zipper. Nat Rev Immunol 9:207–213

    Article  CAS  PubMed  Google Scholar 

  • Persaud SP, Parker CR, Lo WL, Weber KS, Allen PM (2014) Intrinsic CD4+ T cell sensitivity and response to a pathogen are set and sustained by avidity for thymic and peripheral complexes of self peptide and MHC. Nat Immunol 15:266–274

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Reinherz EL, Tan K, Tang L, Kern P, Liu J, Xiong Y, Hussey RE, Smolyar A, Hare B, Zhang R, Joachimiak A, Chang HC, Wagner G, Wang J (1999) The crystal structure of a T cell receptor in complex with peptide and MHC class II. Science 286:1913–1921

    Article  CAS  PubMed  Google Scholar 

  • Ripen AM, Nitta T, Murata S, Tanaka K, Takahama Y (2011) Ontogeny of thymic cortical epithelial cells expressing the thymoproteasome subunit β5t. Eur J Immunol 41:1278–1287

    Article  CAS  PubMed  Google Scholar 

  • Santos RL, Bai L, Singh PK, Murakami N, Fan H, Zhan W, Zhu Y, Jiang X, Zhang K, Assker JP, Nathan CF, Li H, Azzi J, Lin G (2017) Structure of human immunoproteasome with a reversible and noncompetitive inhibitor that selectively inhibits activated lymphocytes. Nat Commun 8:1692

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Sasaki K, Takada K, Ohte Y, Kondo H, Sorimachi H, Tanaka K, Takahama Y, Murata S (2015) Thymoproteasomes produce unique peptide motifs for positive selection of CD8+ T cells. Nat Commun 6:7484

    Article  CAS  PubMed  Google Scholar 

  • Singer A, Mizuochi T, Munitz TI, Gress RE (1986) Role of self antigens in the selection of the developing T cell repertoire. Prog Immunol 6:60–66

    Article  Google Scholar 

  • Starr TK, Jameson SC, Hogquist KA (2003) Positive and negative selection of T cells. Annu Rev Immunol 21:139–176

    Article  CAS  PubMed  Google Scholar 

  • Stern LJ, Brown JH, Jardetzky TS, Gorga JC, Urban RG, Strominger JL, Wiley DC (1994) Crystal structure of the human class II MHC protein HLA-DR1 complexed with an influenza virus peptide. Nature 368:215–221

    Article  CAS  PubMed  Google Scholar 

  • Takada K, Van Laethem F, Xing Y, Akane K, Suzuki H, Murata S, Tanaka K, Jameson SC, Singer A, Takahama Y (2015) TCR affinity for thymoproteasome-dependent positively selecting peptides conditions antigen responsiveness in CD8+ T cells. Nat Immunol 16:1069–1076

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Takahama Y, Tanaka K, Murata S (2008) Modest cortex and promiscuous medulla for thymic repertoire formation. Trends Immunol 29:251–255

    Article  CAS  PubMed  Google Scholar 

  • Takahama Y, Nitta T, Mat Ripen A, Nitta S, Murata S, Tanaka K (2010) Role of thymic cortex-specific self-peptides in positive selection of T cells. Semin Immunol 22:28–293

    Article  CAS  Google Scholar 

  • Tomaru U, Ishizu A, Murata S, Miyatake Y, Suzuki S, Takahashi S, Kazamaki T, Ohara J, Baba T, Iwasaki S, Fugo K, Otsuka N, Tanaka K, Kasahara M (2009) Exclusive expression of proteasome subunit β5t in the human thymic cortex. Blood 113:5186–5191

    Article  CAS  PubMed  Google Scholar 

  • Townsend AR, Rothbard J, Gotch FM, Bahadur G, Wraith D, McMichael AJ (1986) The epitopes of influenza nucleoprotein recognized by cytotoxic T lymphocytes can be defined with short synthetic peptides. Cell 44:959–968

    Article  CAS  PubMed  Google Scholar 

  • Unno M, Mizushima T, Morimoto Y, Tomisugi Y, Tanaka K, Yasuoka N, Tsukihara T (2002) The structure of the mammalian 20S proteasome at 2.75 Å resolution. Structure 10:609–618

    Article  CAS  PubMed  Google Scholar 

  • Viret C, Lamare C, Guiraud M, Fazilleau N, Bour A, Malissen B, Carrier A, Guerder S (2011) Thymus-specific serine protease contributes to the diversification of the functional endogenous CD4 T cell receptor repertoire. J Exp Med 208:3–11

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Xing Y, Jameson SC, Hogquist KA (2013) Thymoproteasome subunit-β5T generates peptide-MHC complexes specialized for positive selection. Proc Natl Acad Sci U S A 110:6979–6984

    Article  PubMed  PubMed Central  Google Scholar 

  • Zinkernagel RM, Callahan GN, Althage A, Cooper S, Klein PA, Klein J (1978) On the thymus in the differentiation of “H-2 self-recognition” by T cells: evidence for dual recognition? J Exp Med 147:882–896

    Article  CAS  PubMed  Google Scholar 

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Acknowledgements

The authors thank Dr. Alfred Singer (NCI, NIH, USA) for inspiring discussion and reading the manuscript and Dr. Tsunehiro Mizushima (University of Hyogo, Japan) for structural analysis of the proteasome components.

Funding

Y.T. is supported by the Intramural Research Program of the US National Institutes of Health, the National Cancer Institute, and the Center for Cancer Research. In addition, Y.T., I.O., S.M., and K.T. are supported by MEXT-JSPS, Japan (grants 16H02630, 17K08884, 28H04022, and 26000014, respectively).

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Correspondence to Yousuke Takahama.

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This article is part of the Topical Collection on Biology and Evolution of Antigen Presentation

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Takahama, Y., Ohigashi, I., Murata, S. et al. Thymoproteasome and peptidic self. Immunogenetics 71, 217–221 (2019). https://doi.org/10.1007/s00251-018-1081-3

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