Defining CD8+ T cell determinants during human viral infection in populations of asian ethnicity

Journal of Immunology

Volumn 191, Issue 8, 2013, Pages 4010-4019

  Rivino, Laura ^a   Tan, Anthony T ^b   Chia, Adeline ^b   Kumaran, Emmanuelle A P ^a   Grotenbreg, Gijsbert M ^a   MacAry, Paul A ^a   Bertoletti, Antonio ^b,c,d  

^a NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

^b AGENCY FOR SCIENCE   (Singapore)

^c Dept Medicine Endocrinol Diabet   (Singapore)

^d DUKE NUS MEDICAL SCHOOL   (Singapore)

Author keywords

[No Author keywords available]

Indexed keywords

EPITOPE; GAMMA INTERFERON; HLA A ANTIGEN; MAJOR HISTOCOMPATIBILITY ANTIGEN;

ALGORITHM; ANTIGEN EXPRESSION; ARTICLE; ASIAN; CD8+ T LYMPHOCYTE; CLINICAL ARTICLE; CONTROLLED STUDY; CYTOKINE PRODUCTION; DENGUE; DENGUE VIRUS; DISEASE ASSOCIATION; ETHNICITY; HEPATITIS B; HEPATITIS B VIRUS; HUMAN; HUMAN CELL; IMMUNOGENICITY; NONHUMAN; NUCLEOTIDE SEQUENCE; PEPTIDE SYNTHESIS; PREDICTIVE VALUE; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN PROTEIN INTERACTION; SARS CORONAVIRUS; SEVERE ACUTE RESPIRATORY SYNDROME; VIRUS STRAIN;

ALGORITHMS; CD8-POSITIVE T-LYMPHOCYTES; CORONAVIRUS; DENGUE; DENGUE VIRUS; EPITOPES, T-LYMPHOCYTE; HEPATITIS B; HEPATITIS B VIRUS; HISTOCOMPATIBILITY ANTIGENS CLASS I; HLA-A11 ANTIGEN; HLA-A24 ANTIGEN; HUMANS; SEVERE ACUTE RESPIRATORY SYNDROME; SINGAPORE;

EID: 84885446358     PISSN: 00221767     EISSN: 15506606     Source Type: Journal    
DOI: 10.4049/jimmunol.1301507     Document Type: Article

References (31)

1. Yewdell, J. W. 2006. Confronting complexity: real-world immunodominance in antiviral CD8+ T cell responses. Immunity 25: 533-543.
2. Eggers, M., B. Boes-Fabian, T. Ruppert, P. M. Kloetzel, and U. H. Koszinowski. 1995. The cleavage preference of the proteasome governs the yield of antigenic peptides. J. Exp. Med. 182: 1865-1870.
3. Rivino, L., E. A. Kumaran, V. Jovanovic, K. Nadua, E. W. Teo, S. W. Pang, G. H. Teo, V. C. Gan, D. C. Lye, Y. S. Leo, et al. 2013. Differential targeting of viral components by CD4+ versus CD8+ T lymphocytes in dengue virus infection. J. Virol.87: 2693-2706.
4. Duangchinda, T., W. Dejnirattisai, S. Vasanawathana, W. Limpitikul, N. Tangthawornchaikul, P. Malasit, J. Mongkolsapaya, and G. Screaton. 2010. Immunodominant T-cell responses to dengue virus NS3 are associated with DHF. Proc. Natl. Acad. Sci. USA 107: 16922-16927.
5. Lundegaard, C., I. Hoof, O. Lund, and M. Nielsen. 2010. State of the art and challenges in sequence based T-cell epitope prediction. Immunome Res. 6(Suppl. 2): S3.
6. Lafuente, E. M., and P. A. Reche. 2009. Prediction of MHC-peptide binding: a systematic and comprehensive overview. Curr. Pharm. Des. 15: 3209-3220.
7. Sette, A., and R. Rappuoli. 2010. Reverse vaccinology: developing vaccines in the era of genomics. Immunity 33: 530-541.
8. Kotturi, M. F., B. Peters, F. Buendia-Laysa, Jr., J. Sidney, C. Oseroff, J. Botten, H. Grey, M. J. Buchmeier, and A. Sette. 2007. The CD8+ T-cell response to lymphocytic choriomeningitis virus involves the L antigen: uncovering new tricks for an old virus. J. Virol. 81: 4928-4940.
9. Chang, C. X., L. Dai, Z.W. Tan, J. A. Choo, A. Bertoletti, and G. M. Grotenbreg. 2011. Sources of diversity in T cell epitope discovery. Front Biosci. (Landmark Ed.) 16: 3014-3035.
10. Nielsen, M., C. Lundegaard, T. Blicher, K. Lamberth, M. Harndahl, S. Justesen, G. Røder, B. Peters, A. Sette, O. Lund, and S. Buus. 2007. NetMHCpan, a method for quantitative predictions of peptide binding to any HLA-A and-B locus protein of known sequence. PLoS ONE 2: e796.
11. Hoof, I., B. Peters, J. Sidney, L. E. Pedersen, A. Sette, O. Lund, S. Buus, and M. Nielsen. 2009. NetMHCpan, a method for MHC class I binding prediction beyond humans. Immunogenetics 61: 1-13.
12. World Health Organization. 2009. Dengue Guidelines for Diagnosis, Treatment, Prevention and Control: New Edition. World Health Organization, Geneva, Switzerland.
13. World Health Organization. 2003. Case Definitions for Surveillance of Severe Acute Respiratory Syndrome (SARS). World Health Organization, Geneva, Switzerland.
14. Oh, H. L., A. Chia, C. X. Chang, H. N. Leong, K. L. Ling, G. M. Grotenbreg, A. J. Gehring, Y. J. Tan, and A. Bertoletti. 2011. Engineering T cells specific for a dominant severe acute respiratory syndrome coronavirus CD8 T cell epitope. J. Virol. 85: 10464-10471.
15. Tan, A. T., E. Loggi, C. Boni, A. Chia, A. J. Gehring, K. S. Sastry, V. Goh, P. Fisicaro, P. Andreone, C. Brander, et al. 2008. Host ethnicity and virus genotype shape the hepatitis B virus-specific T-cell repertoire. J. Virol. 82: 10986-10997.
16. Chang, C. X., A. T. Tan, M. Y. Or, K. Y. Toh, P. Y. Lim, A. S. Chia, T. M. Froesig, K. D. Nadua, H. L. Oh, H. N. Leong, et al. 2013. Conditional ligands for Asian HLA variants facilitate the definition of CD8(+) T-cell responses in acute and chronic viral diseases. Eur J Immunol. 43: 1109-1120.
17. Larsen, M. V., C. Lundegaard, K. Lamberth, S. Buus, S. Brunak, O. Lund, and M. Nielsen. 2005. An integrative approach to CTL epitope prediction: a combined algorithm integrating MHC class I binding, TAP transport efficiency, and proteasomal cleavage predictions. Eur. J. Immunol. 35: 2295-2303.
18. Chew, S. L., M. Y. Or, C. X. Chang, A. J. Gehring, A. Bertoletti, and G. M. Grotenbreg. 2011. Stability screening of arrays of major histocompatibility complexes on combinatorially encoded flow cytometry beads. J. Biol. Chem. 286: 28466-28475.
19. Penna, A., F. V. Chisari, A. Bertoletti, G. Missale, P. Fowler, T. Giuberti, F. Fiaccadori, and C. Ferrari. 1991. Cytotoxic T lymphocytes recognize an HLAA2-restricted epitope within the hepatitis B virus nucleocapsid antigen. J. Exp. Med. 174: 1565-1570.
20. Bertoletti, A., C. Ferrari, F. Fiaccadori, A. Penna, R. Margolskee, H. J. Schlicht, P. Fowler, S. Guilhot, and F. V. Chisari. 1991. HLA class I-restricted human cytotoxic T cells recognize endogenously synthesized hepatitis B virus nucleocapsid antigen. Proc. Natl. Acad. Sci. USA 88: 10445-10449.
21. Webster, G. J., S. Reignat, D. Brown, G. S. Ogg, L. Jones, S. L. Seneviratne, R. Williams, G. Dusheiko, and A. Bertoletti. 2004. Longitudinal analysis of CD8 + T cells specific for structural and nonstructural hepatitis B virus proteins in patients with chronic hepatitis B: implications for immunotherapy. J. Virol. 78: 5707-5719.
22. Sobao, Y., K. Sugi, H. Tomiyama, S. Saito, S. Fujiyama, M. Morimoto, S. Hasuike, H. Tsubouchi, K. Tanaka, and M. Takiguch. 2001. Identification of hepatitis B virus-specific CTL epitopes presented by HLA-A*2402, the most common HLA class I allele in East Asia. J. Hepatol. 34: 922-929.
23. Longmate, J., J. York, C. La Rosa, R. Krishnan, M. Zhang, D. Senitzer, and D. J. Diamond. 2001. Population coverage by HLA class-I restricted cytotoxic T-lymphocyte epitopes. Immunogenetics 52: 165-173.
24. Hebart, H., S. Daginik, S. Stevanovic, U. Grigoleit, A. Dobler, M. Baur, G. Rauser, C. Sinzger, G. Jahn, J. Loeffler, et al. 2002. Sensitive detection of human cytomegalovirus peptide-specific cytotoxic T-lymphocyte responses by interferon-gamma-enzyme-linked immunospot assay and flow cytometry in healthy individuals and in patients after allogeneic stem cell transplantation. Blood 99: 3830-3837.
25. Masuoka, M., T. Yoshimuta, M. Hamada, M. Okamoto, T. Fumimori, J. Honda, K. Oizumi, and K. Itoh. 2001. Identification of the HLA-A24 peptide epitope within cytomegalovirus protein pp65 recognized by CMV-specific cytotoxic T lymphocytes. Viral Immunol. 14: 369-377.
26. Kuzushima, K., N. Hayashi, H. Kimura, and T. Tsurumi. 2001. Efficient identification of HLA-A*2402-restricted cytomegalovirus-specific CD8(+) T-cell epitopes by a computer algorithm and an enzyme-linked immunospot assay. Blood 98: 1872-1881.
27. Sette, A., J. Sidney, M. F. del Guercio, S. Southwood, J. Ruppert, C. Dahlberg, H. M. Grey, and R. T. Kubo. 1994. Peptide binding to the most frequent HLA-A class I alleles measured by quantitative molecular binding assays. Mol. Immunol. 31: 813-822.
28. Yewdell, J. W., and J. R. Bennink. 1999. Immunodominance in major histocompatibility complex class I-restricted T lymphocyte responses. Annu. Rev. Immunol. 17: 51-88.
29. Moutaftsi, M., B. Peters, V. Pasquetto, D. C. Tscharke, J. Sidney, H. H. Bui, H. Grey, and A. Sette. 2006. A consensus epitope prediction approach identifies the breadth of murine T(CD8+)-cell responses to vaccinia virus. Nat. Biotechnol. 24: 817-819.
30. Kim, S. K., M. Cornberg, X. Z. Wang, H. D. Chen, L. K. Selin, and R. M. Welsh. 2005. Private specificities of CD8 T cell responses control patterns of heterologous immunity. J. Exp. Med. 201: 523-533.
31. Cornberg, M., A. T. Chen, L. A. Wilkinson, M. A. Brehm, S. K. Kim, C. Calcagno, D. Ghersi, R. Puzone, F. Celada, R. M. Welsh, and L. K. Selin. 2006. Narrowed TCR repertoire and viral escape as a consequence of heterologous immunity. J. Clin. Invest. 116: 1443-1456.