Associations between HLA class I alleles and escape mutations in the hepatitis B Virus core gene in New Zealand-resident tongans

Journal of Virology

Volumn 84, Issue 1, 2010, Pages 621-629

  Abbott, William G H ^a,b   Tsai, Peter ^b   Leung, Euphemia ^b   Trevarton, Alex ^b   Ofanoa, Malakai ^b   Hornell, John ^c   Gane, Edward J ^a   Munn, Stephen R ^a   Rodrigo, Allen G ^b  

^a AUCKLAND CITY HOSPITAL   (New Zealand)

^b UNIVERSITY OF AUCKLAND   (New Zealand)

^c Hepatitis Foundation   (New Zealand)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID;

ADULT; ALLELE; ARTICLE; CD8+ T LYMPHOCYTE; CHRONIC HEPATITIS; CLINICAL ARTICLE; DNA EXTRACTION; DNA SEQUENCE; FEMALE; GENETIC ASSOCIATION; HEPATITIS B; HEPATITIS B VIRUS; HLA SYSTEM; HUMAN; MALE; MOLECULAR CLONING; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; VIRUS MUTATION; VIRUS REPLICATION;

ALLELES; HEPATITIS B; HEPATITIS B VIRUS; HISTOCOMPATIBILITY ANTIGENS CLASS I; HLA-A ANTIGENS; HLA-B ANTIGENS; HUMANS; IMMUNE EVASION; MUTATION; NEW ZEALAND; PEPTIDE FRAGMENTS; SELECTION, GENETIC; TONGA; VIRAL CORE PROTEINS;

HEPATITIS B VIRUS;

EID: 72849112304     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/JVI.01471-09     Document Type: Article

References (32)

1. Abbott, W. G., C. F. Tukuitonga, M. Ofanoa, S. R. Munn, and E. J. Gane. 2006. Low-cost, simultaneous, single-sequence genotyping of the HLA-A, HLA-B and HLA-C loci. Tissue Antigens 68:28-37.
2. Akarca, U. S., and A. S. Lok. 1995. Naturally occurring hepatitis B virus core gene mutations. Hepatology 22:50-60.
3. Bertoletti, A., A. Costanzo, F. V. Chisari, M. Levrero, M. Artini, A. Sette, A. Penna, T. Giuberti, F. Fiaccadori, and C. Ferrari. 1994. Cytotoxic T lymphocyte response to a wild type hepatitis B virus epitope in patients chronically infected by variant viruses carrying substitutions within the epitope. J. Exp. Med. 180:933-943.
4. Boni, C., P. Fisicaro, C. Valdatta, B. Amadei, P. Di Vincenzo, T. Giuberti, D. Laccabue, A. Zerbini, A. Cavalli, G. Missale, A. Bertoletti, and C. Ferrari. 2007. Characterization of hepatitis B virus (HBV)-specific T-cell dysfunction in chronic HBV infection. J. Virol. 81:4215-4225. (Pubitemid 46586915)
5. Chang, T. T., R. G. Gish, R. de Man, A. Gadano, J. Sollano, Y. C. Chao, A. S. Lok, K. H. Han, Z. Goodman, J. Zhu, A. Cross, D. DeHertogh, R. Wilber, R. Colonno, and D. Apelian. 2006. A comparison of entecavir and lamivudine for HBeAg-positive chronic hepatitis B. N. Engl. J. Med. 354:1001-1010.
6. Corpet, F. 1988. Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res. 16:10881-10890.
7. Crawford, H., J. G. Prado, A. Leslie, S. Hue, I. Honeyborne, S. Reddy, M. van der Stok, Z. Mncube, C. Brander, C. Rousseau, J. I. Mullins, R. Kaslow, P. Goepfert, S. Allen, E. Hunter, J. Mulenga, P. Kiepiela, B. D. Walker, and P. J. Goulder. 2007. Compensatory mutation partially restores fitness and delays reversion of escape mutation within the immunodominant HLAB*5703- restricted Gag epitope in chronic human immunodeficiency virus type 1 infection. J. Virol. 81:8346-8351.
8. Guindon, S., A. G. Rodrigo, K. A. Dyer, and J. P. Huelsenbeck. 2004. Modeling the site-specific variation of selection patterns along lineages. Proc. Natl. Acad. Sci. U. S. A. 101:12957-12962.
9. Gunther, S. 2006. Genetic variation in HBV infection: genotypes and mutants. J. Clin. Virol. 36(Suppl. 1):S3-S11.
10. Lai, C. L., D. Shouval, A. S. Lok, T. T. Chang, H. Cheinquer, Z. Goodman, D. DeHertogh, R. Wilber, R. C. Zink, A. Cross, R. Colonno, and L. Fernandes. 2006. Entecavir versus lamivudine for patients with HBeAg-negative chronic hepatitis B. N. Engl. J. Med. 354:1011-1020.
11. Liaw, Y. F. 2009. Natural history of chronic hepatitis B virus infection and long-term outcome under treatment. Liver Int. 29(Suppl. 1):100-107.
12. Lim, S. G., Y. Cheng, S. Guindon, B. L. Seet, L. Y. Lee, P. Hu, S. Wasser, F. J. Peter, T. Tan, M. Goode, and A. G. Rodrigo. 2007. Viral quasi-species evolution during hepatitis Be antigen seroconversion. Gastroenterology 133:951-958. (Pubitemid 47381357)
13. Lok, A. S., E. J. Heathcote, and J. H. Hoofnagle. 2001. Management of hepatitis B: 2000 - summary of a workshop. Gastroenterology 120:1828-1853. (Pubitemid 32523500)
14. Lundegaard, C., K. Lamberth, M. Harndahl, S. Buus, O. Lund, and M. Nielsen. 2008. NetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8-11. Nucleic Acids Res. 36:W509-W512.
15. Maini, M. K., C. Boni, C. K. Lee, J. R. Larrubia, S. Reignat, G. S. Ogg, A. S. King, J. Herberg, R. Gilson, A. Alisa, R. Williams, D. Vergani, N. V. Naoumov, C. Ferrari, and A. Bertoletti. 2000. The role of virus-specific CD8(+) cells in liver damage and viral control during persistent hepatitis B virus infection. J. Exp. Med. 191:1269-1280.
16. Malmassari, S., Y. C. Lone, M. Zhang, C. Transy, and M. L. Michel. 2005. In vivo hierarchy of immunodominant and subdominant HLA-A*0201-restricted T-cell epitopes of HBx antigen of hepatitis B virus. Microbes Infect. 7:626-634.
17. Marinos, G., N. V. Naoumov, and R. Williams. 1996. Impact of complete inhibition of viral replication on the cellular immune response in chronic hepatitis B virus infection. Hepatology 24:991-995. (Pubitemid 26365893)
18. McMichael, A. J., and R. E. Phillips. 1997. Escape of human immunodeficiency virus from immune control. Annu. Rev. Immunol. 15:271-296.
19. Missale, G., A. Redeker, J. Person, P. Fowler, S. Guilhot, H. J. Schlicht, C. Ferrari, and F. V. Chisari. 1993. HLA-A31- and HLA-Aw68-restricted cytotoxic T cell responses to a single hepatitis B virus nucleocapsid epitope during acute viral hepatitis. J. Exp. Med. 177:751-762.
20. Norder, H., A. M. Courouce, P. Coursaget, J. M. Echevarria, S. D. Lee, I. K. Mushahwar, B. H. Robertson, S. Locarnini, and L. O. Magnius. 2004. Genetic diversity of hepatitis B virus strains derived worldwide: genotypes, subgenotypes, and HBsAg subtypes. Intervirology 47:289-309. (Pubitemid 39541275)
21. Rehermann, B., P. Fowler, J. Sidney, J. Person, A. Redeker, M. Brown, B. Moss, A. Sette, and F. V. Chisari. 1995. The cytotoxic T lymphocyte response to multiple hepatitis B virus polymerase epitopes during and after acute viral hepatitis. J. Exp. Med. 181:1047-1058.
22. Rehermann, B., D. Lau, J. H. Hoofnagle, and F. V. Chisari. 1996. Cytotoxic T lymphocyte responsiveness after resolution of chronic hepatitis B virus infection. J. Clin. Invest. 97:1655-1665.
23. Schneidewind, A., M. A. Brockman, J. Sidney, Y. E. Wang, H. Chen, T. J. Suscovich, B. Li, R. I. Adam, R. L. Allgaier, B. R. Mothe, T. Kuntzen, C. Oniangue-Ndza, A. Trocha, X. G. Yu, C. Brander, A. Sette, B. D. Walker, and T. M. Allen. 2008. Structural and functional constraints limit options for cytotoxic T-lymphocyte escape in the immunodominant HLA-B27-restricted epitope in human immunodeficiency virus type 1 capsid. J. Virol. 82:5594-5605.
24. Schneidewind, A., Z. L. Brumme, C. J. Brumme, K. A. Power, L. L. Reyor, K. O'Sullivan, A. Gladden, U. Hempel, T. Kuntzen, Y. E. Wang, C. Oniangue-Ndza, H. Jessen, M. Markowitz, E. S. Rosenberg, R. P. Sekaly, A. D. Kelleher, B. D. Walker, and T. M. Allen. 2009. Transmission and long-term stability of compensated CD8 escape mutations. J. Virol. 83:3993-3997.
25. 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. (Pubitemid 32595194)
26. Tan, A. T., E. Loggi, C. Boni, A. Chia, A. J. Gehring, K. S. Sastry, V. Goh, P. Fisicaro, P. Andreone, C. Brander, S. G. Lim, C. Ferrari, F. Bihl, and A. Bertoletti. 2008. Host ethnicity and virus genotype shape the hepatitis B virus-specific T-cell repertoire. J. Virol. 82:10986-10997.
27. Tenzer, S., E. Wee, A. Burgevin, G. Stewart-Jones, L. Friis, K. Lamberth, C. H. Chang, M. Harndahl, M. Weimershaus, J. Gerstoft, N. Akkad, P. Klenerman, L. Fugger, E. Y. Jones, A. J. McMichael, S. Buus, H. Schild, P. van Endert, and A. K. Iversen. 2009. Antigen processing influences HIV-specific cytotoxic T lymphocyte immunodominance. Nat. Immunol. 10:636-646.
28. Tsai, S. L., M. H. Chen, C. T. Yeh, C. M. Chu, A. N. Lin, F. H. Chiou, T. H. Chang, and Y. F. Liaw. 1996. Purification and characterization of a naturally processed hepatitis B virus peptide recognized by CD8+ cytotoxic T lymphocytes. J. Clin. Invest. 97:577-584.
29. Vasmatzis, G., C. Zhang, J. L. Cornette, and C. DeLisi. 1996. Computational determination of side chain specificity for pockets in class I MHC molecules. Mol. Immunol. 33:1231-1239.
30. 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.
31. Yang, Z., W. S. Wong, and R. Nielsen. 2005. Bayes empirical Bayes inference of amino acid sites under positive selection. Mol. Biol. Evol. 22:1107-1118.
32. Yewdell, J. W. 2006. Confronting complexity: real-world immunodominance in antiviral CD8+ T cell responses. Immunity 25:533-543.