Christian Brander and Philip J. R. GoulderAIDS Research Center, Massachusetts General Hospital
Updated November 1999
Since the last update of the Los Alamos HIV Immunology Database in 1998, the role of CTL in HIV and SIV infection has been further recognized as a beneficial and essential part of the host immune response against these viruses [Schmitz(1999), Brander & Walker(1999b)]. As the full picture of the precise role of HIV specific CTL is still emerging, it becomes clear that under certain circumstances these cells are able to contribute significantly to the control of viral replication in infected individuals [Ogg(1998)]. Along with more sophisticated techniques to detect and quantify CTL responses, including ELISPOT and Tetramer methodologies [McMichael & O'Callaghan(1998), Goulder(2000a)], more detailed analyses of the genetic background of infected individuals may provide new insights into HIV pathogenesis [Tang(1999), Carrington(1999)].
The identification of HLA alleles which are associated with more rapid or slower disease progression, may now be linked to the importance and dominance of certain CTL epitopes. It is intriguing that thus far, only HLA-B alleles have been consistently associated with HIV-1 disease progression, which may be due to the relative distance of HLA-A genes to the central part of the MHC region containing HLA class III genes involved in the antigen processing. It is interesting that for some alleles (e.g. HLA-A1) no optimal epitopes have been defined, despite relative high frequencies in diverse populations. The mechanisms for HLA association and disease progression and the pattern of class I alleles that present HIV-derived CTL epitopes, including HLA alleles that are frequent in non-Caucasoid populations, require further investigation and these results will also need to be considered for the design of (epitope based) vaccines.
The current update of the list of optimal CTL epitope has undergone a few improvements:
There are an increased number of epitopes listed and the nomenclature for the HLA alleles has been updated. Accordingly, the order of the epitopes may have changed slightly: e.g. the `HLA-B62' allele is now listed as HLA-B*1501. The data for the HLA class I binding motifs have been added for as many HLA alleles as possible and are mainly based on the database by Rammensee and co-workers [Rammensee(1999)].
This year's update has also been modified as more attention was given to epitopes that were contributed by personal communication. The individuals who kindly submitted their unpublished epitopes over the last few years were asked for more detailed titration/truncation data. We have now highlighted with an asterisk (*) those epitopes contributed as personal communications for which we had a chance to review the titration data. As a consequence of this enhanced scrutiny, a number of epitopes (mainly from our own laboratories) had to be removed from the list of optimal epitopes since the characterization did not fulfill all the stricter inclusion criteria. We would like to define these inclusion criteria still further as: a) detailed HLA restriction, possibly including subtype analysis; and b) titration curves with single amino acid truncated, longer and shorter versions of the epitope. In this regard, we found that titration curves with truncated peptides can easily be performed by ELISPOT, even at low numbers of CTL clones added per well (M. Altfeld, unpublished). In addition, an HLA-B35 restricted epitope in gp120 reported by Shiga et al., [Shiga(1996)], was included without peptide titrations being performed, since it has been used successfully in tetramer staining procedure in later studies [Ogg(1999)].
Some of the newly added epitopes deserve special attention as these are the first ones of a series of epitopes that have been identified in individuals with acute HIV-1 infection (M. Altfeld, unpublished data). These preliminary studies suggest that responses which are immunodominant in acute infection may differ from those seen in chronic infection. These findings will need more confirmation, but may also help to explain the immunodominance of certain epitopes in chronic infection. One possible explanation for these different responses could be that the responses elicited during acute infection are diminished over time (for various reasons, [Brander & Walker(1999b)] and that a new generation of epitopes that may be more resistant to CTL escape remain detectable in chronic infection. In this regard, the clustering of CTL epitopes to certain regions of the HIV genome may need to be revisited and more studies in acute infected individuals may help to complete the picture of the role CTL play in HIV infection.
We would like to express our gratitude to the large number of researchers in the field who continuously contribute to this database. We very much welcome any criticism, comments and additions to this list since we are sure that some epitopes will unintentionally escape our attention, despite close monitoring of the literature. Please write or call us with any comments at:
Christian Brander Bruce D. Walker phone: (617) 724-5789 phone: (617) 724-8332 FAX: (617) 726-5411 FAX: (617) 726-4691 firstname.lastname@example.org email@example.com Philip J.R. Goulder Bette Korber phone: (617) 726-5787 phone: (505) 665-4453 FAX: (617) 726-5411 FAX: (505) 665-3493 firstname.lastname@example.org email@example.com
M.A. Alexander-Miller, K.C. Parker, T.Tsukui, C.D. Pendleton, J.E. Coligan, & J.A. Berzofsky. Molecular analysis of presentation by HLA-A2.1 of a promiscuously binding V3 loop peptide from the HIV-1 Envelope protein to human cytotoxic T lymphocytes. Int Immunol 8:641--649, 1996.
L.D. Barber, B.Gillece-Castro, L.Percival, X.Li, C.Clayberger, &P.Parham. Overlap in the repertoires of peptides bound in vivo by a group of related class I HLA-B allotypes. Curr Biol 5:179--90, 1995.
L.D. Barber, L.Percival, K.L. Arnett, J.E. Gumperz, L.Chen, \& P.Parham. Polymorphism in the $\alpha$1 Helix of the HLA-B Heavy Chain Can Have an Overriding Influence on Peptide-Binding Specificity. J Immunol 158:1660--1669, 1997.
D.Barouch, T.Friede, S.Stevanovic, L.Tussey, K.Smith, S.Rowland-Jones, V.Braud, A.McMichael, &H.G. Rammensee. HLA-A2 subtypes are functionally distinct in peptide binding and presentation. J Exp Med 182:1847--56, 1995.
M.Bauer, M.Lucchiari-Hartz, R.Maier, G.Haas, B.Autran, K.Eichmann, R.Frank, B.Maier, &A.Meyerhans. Structural constraints of HIV-1 Nef may curtail escape from HLA-B7-restricted CTL recognition. Immunol Lett 55:119--22, 1997.
A.Bertoletti, F.Cham, S.McAdam, T.Rostron, S.Rowland-Jones, S.Sabally, T.Corrah, K.Ariyoshi, &H.Whittle. Cytotoxic T cells from human immunodeficiency virus type 2-infected patients frequently cross-react with different human immunodeficiency virus type 1 Clades. J Virol 72:2439--2448, 1998.
P.Borrow, H.Lewicki, X.Wei, M.S. Horwitz, N.Peffer, H.Meyers, J.A. Nelson, J.E. Gairin, B.H. Hahn, M.B. Oldstone, &G.M. Shaw. Anti-viral pressure exerted by HIV-1-specific cytotoxic T lymphocytes (CTLs) during primary infection demonstrated by rapid selection of CTL escape virus. Nat Med 3:205--11, 1997.
C.Brander &B.D. Walker. T lymphocyte responses in HIV-1 infection: implications for vaccine development. Curr Opin Immunol 11:451--9, 1999.
F.Buseyne, M.McChesney, F.Porrot, S.Kovarik, B.Guy, \& Y.Riviere. Gag-specific cytotoxic T lymphocytes from human immunodeficiency virus type 1 infected individuals: gag epitopes are clustered in three regions of the p24 gag protein. J Virol 67:694--702, 1993.
F.Buseyne, S.Stevanovic, H.Rammensee, &Y.Riviere. Characterization of an HIV-1 p24 gag epitope recognized by a CD8+ cytotoxic T-cell clone. Immunol Lett 55(3):145--149, 1997.
M.Carrington, G.W. Nelson, M.P. Martin, T.Kissner, D.Vlahov, J.J. Goedert, R.Kaslow, S.Buchbinder, K.Hoots, &S.J. O'Brien. HLA and HIV-1: heterozygote advantage and B*35-Cw*04 disadvantage [see comments]. Science 283:1748--52, 1999.
B.Culmann, E.Gomard, M.-P. Kieny, B.Guy, F.Dreyfus, A.-D. Saimot, D.Sereni, D.Sicard, &J.-P. Levy. Six epitopes with human cytotoxic CD8+ cells in the central region of the HIV-1 Nef protein. J Immunol 146:1560--1565, 1991.
B.Culmann-Penciolelli, S.Lamhamedi-Cherradi, I.Couillin, N.Guegan, J.P. Levy, J.G. Guillet, &E.Gomard. Identification of multirestricted immunodominant regions recognized by cytolytic T lymphocytes in the human immunodeficiency virus type 1 Nef protein (See comments in J Virol 1995 Jan;69(1):618). J Virol 68:7336--43, 1994.
L.C. Dai, K.West, R.Littaua, K.Takahashi, &F.A. Ennis. Mutation of human immunodeficiency virus type 1 at amino acid 585 on gp41 results in loss of killing by CD8+ A24-restricted cytotoxic T lymphocytes. J Virol 66:3151--3154, 1992.
M.DiBrino, K.C. Parker, &J.S. et al. Endogenous peptides bound to HLA-A3 possess a specific combination of anchor residues that permit identification of potential antigenic peptides. Proc Natl Acad Sci USA 90:1508--1512, 1993.
M.DiBrino, K.C. Parker, D.H. Margulies, J.Shiloach, R.V. Turner, M.Garfield, W.E. Biddison WE, &J.E. Coligan. The HLA-B14 peptide binding site can accommodate peptides with different combinations of anchor residues. J Biol Chem 269, 1994a.
M.DiBrino, K.C. Parker, J.Shiloach, R.V. Turner, T.Tsuchida, M.Garfield, W.E. Biddison, &J.E. Coligan. Endogenous peptides with distinct amino acid anchor residue motifs bind to HLA-A1 and HLA-B8. J Immunol 152:620--31, 1994b.
L.Dorrell, T.Dong, G.S. Ogg, S.Lister, S.McAdam, T.Rostron, C.Conlon, A.J. McMichael, &S.L. Rowland-Jones. Distinct recognition of non-clade B human immunodeficiency virus type 1 epitopes by cytotoxic T lymphocytes generated from donors infected in Africa. J Virol 73:1708--14, 1999.
T.Dumrese, S.Stevanovic, F.H. Seeger, N.Yamada, Y.Ishikawa, K.Tokunaga, M.Takiguchi, &H.Rammensee. HLA-A26 subtype A pockets accommodate acidic N-termini of ligands. Immunogenetics 48:350--3, 1998.
M.Dupuis, S.K. Kundu, &T.C. Merigan. Characterization of HLA-A*0201-restricted cytotoxic T-cell epitopes in conserved regions of the HIV type 1 gp160 protein. J Immunol 155:2232--2239, 1995.
V.H. Englehard, E.L. Huczko, &W.Bodner et al. Peptides bound to HLA-B7 determined by mass spectrometry. J Cell Biochem Suppl 1993 17C:56, 1993.
K.Falk, O.Rotzschke, S.Stevanovic, G.Jung, &H.-G. Rammensee. Allele-specific motifs revealed by sequencing of self-peptides eluted from MHC molecules. Nature 351:290--296, 1991.
K.Falk, O.Rotzschke, B.Grahovac, D.Schendel, S.Stevanovic, G.Jung, &H.G. Rammensee. Peptide motifs of HLA-B35 and -B37 molecules [published erratum appears in Immunogenetics 1994;39(5):379]. Immunogenetics 38:161--2, 1993.
K.Falk, O.Rotzschke, &B.Grahavac. Allele-specific peptide motifs of HLA-C molecules. Proc Natl Acad Sci USA 90:12005--12009, 1994.
K.Falk, O.Rotzschke, M.Takiguchi, V.Gnau, S.Stevanovic, G.Jung, &H.Rammensee. Peptide motifs of HLA-B38 and B39 molecules. Immunogenetics 41:162--164, 1995a.
K.Falk, O.Rotzschke, M.Takiguchi, V.Gnau, S.Stevanovic, G.Jung, &H.Rammensee. Peptide motifs of HLA-B58, B60, B61, and B62 molecules. Immunogenetics 41:165--168, 1995b.
F.Gotch, S.N. McAdam, &C.E. Allsopp et al. Cytotoxic T-cells in HIV-2 seropositive Gambians. Identification of a virus specific MHC-restricted peptide epitope. J Immunol 151:3361--3369, 1993.
P.Goulder, C.Conlon, K.McIntyre, &A.McMichael. Identification of a novel human leukogen antigen A26-restricted epitope in a conserved region of Gag. AIDS 10(12):1441--1443, 1996a.
P.J.R. Goulder, M.Bunce, P.Krausa, K.McIntyre, S.Crowley, B.Morgan, A.Edwards, P.Giangrande, R.E. Phillips, &A.J. McMichael. Novel, cross-restricted, conserved and immunodominant cytotoxic T lymphocyte epitopes in slow HIV Type 1 infection. AIDS Res and Hum Retroviruses 12:1691--1698, 1996b.
P.Goulder, A.Sewell, D.Lalloo, D.Price, J.Whelan, J.Evans, G.Taylor, G.Luzzi, P.Giangrande, R.Phillips, &A.J. McMichael. Patterns of immunodominance in HIV-1-specific cytotoxic T lymphocyte responses in two human histocompatibility leukocyte antigens (HLA)-identical siblings with HLA-A*0201 are influenced by epitope mutation. J Exp Med 8:1423--33, 1997a.
P.J. Goulder, M.Bunce, G.Luzzi, R.E. Phillips, &A.J. McMichael. Potential underestimation of HLA-C-restricted cytotoxic T-lymphocyte responses. AIDS 11(15):1884--1886, 1997b.
P.J.R. Goulder, R.E. Phillips, R.A. Colbert, S.McAdam, G.Ogg, M.A. Nowak, P.Giangrande, G.Luzzi, B.Morgan, A.Edwards, A.McMichael, &S.Rowland-Jones. Late Escape from an immunodominant cytotoxic T-lymphocyte response associated with progression to AIDS. Nature Med 3:212--216, 1997c.
P.J.R. Goulder, S.W. Reid, D.A. Price, C.A. O'Callaghan, A.J. McMichael, R.E. Phillips, &E.Y. Jones. Combined structural and immunological refinement of HIV-1 HLA-B8 restricted cytotoxic T lymphocyte epitopes. Eur J Immunol 27:1515--1521, 1997d.
P.J.R. Goulder, C.Brander, K.Annamalai, N.Mngqundaniso, U.Govender, Y.Tang, S.He, K.E. Hartman, C.A. O'Callaghan, G.S. Ogg, M.A. Altfeld, E.S. Rosenberg, H.Cao, S.A. Kalams, M.Hammond, M.Bunce, S.I. Pelton, S.A. Burchett, K.McIntosh, H.M. Coovadia, &B.D. Walker. Differential narrow focusing of immunodominant HIV gag-specific CTL responses in infected African and Caucasoid adults and children. submitted 2000a.
P.J.R. Goulder, Y.Tang, C.Brander, M.R. Betts, A.Trocha, S.He, E.S. Rosenberg, C.A.O. GrahamOgg, S.A. Kalams, R.E. McKinney, K.Mayer, R.A. Koup, S.I. Pelton, S.K. Burchett, K.McIntosh, &B.D. Walker. Functionally inert HIV-specific cytotoxic T lymphocytes do not play a major role in chronically infected adults and children. submitted 2000b.
P.J.R. Goulder, Y.Tang, S.I. Pelton, &B.D. Walker. HLA-B57-restricted CTL activity in a single infected subject towards two optimal HIV epitopes, one of which is entirely contained within the other. J Virol 2000c.
G.Haas, U.Plikat, P.Debre, M.Lucchiari, C.Katlama, Y.Dudoit, O.Bonduelle, M.Bauer, H.Ihlenfeldt, G.Jung, B.Maier, A.Meyerhans, &B.Autran. Dynamics of viral variants in HIV-1 Nef and specific cytotoxic T lymphocytes in vivo. J Immunol 157:4212--4221, 1996.
G.Haas, A.Samri, E.Gomard, A.Hosmalin, J.Duntze, J.M. Bouley, H.G. Ihlenfeldt, C.Katlama, &B.Autran. Cytotoxic T-cell responses to HIV-1 reverse transcriptase, integrase and protease. AIDS 12(12):1427--36, 1998.
E.Harrer, T.Harrer, P.Barbosa, M.Feinberg, R.P. Johnson, S.Buchbinder, &B.D. Walker. Recognition of the highly conserved YMDD region in the human immunodeficiency virus type 1 reverse transcriptase by HLA-A2-restricted cytotoxic T lymphocytes from an asymptomatic long-term nonprogressor. J Inf Dis 173:476--479, 1996a.
T.Harrer, E.Harrer, S.A. Kalams, P.Barbosa, A.Trocha, R.P. Johnson, T.Elbeik, M.B. Feinberg, S.P. Buchbinder, &B.D. Walker. Cytotoxic T lymphocytes in asymptomatic long-term nonprogressing HIV-1 infection. Breadth and specificity of the response and relation to in vivo viral quasispecies in a person with prolonged infection and low viral load. J Immunol 156:2616--2623, 1996b.
T.Harrer, E.Harrer, P.Barbosa, F.Kaufmann, R.Wagner, S.Bruggemann, J.R. Kalden, M.Feinberg, R.P. Johnson, S.Buchbinder, &B.D. Walker. Recognition of two overlapping CTL epitopes in HIV-1 p17 by CTL from a long-term nonprogressing HIV-1-infected individual. J Immunol 161:4875--81, 1998.
A.V. Hill, J.Elvin, A.C. Willis, M.Aidoo, C.E. Allsopp, F.M. Gotch, X.M. Gao, M.Takiguchi, B.M. Greenwood, &A.R. Townsend et al. Molecular analysis of the association of HLA-B53 and resistance to severe malaria (see comments). Nature 360:434--9, 1992.
Y.Ikeda-Moore, H.Tomiyama, M.Ibe, S.Oka, K.Miwa, Y.Kaneko, \& M.Takiguchi. Identification of a novel HLA-A24-restricted cytotoxic T-lymphocyte epitope derived from HIV-1 Gag protein. AIDS 12:2073--4, 1998.
T.S. Jardetzky, W.S. Lane, R.A. Robinson, D.R. Madden, &D.C. Wiley. Identification of self peptides bound to purified HLA-B27. Nature 353:326--9, 1991.
R.P. Johnson, A.Trocha, L.Yang, G.P. Mazzara, D.L. Panicali, T.M. Buchanan, &B.D. Walker. HIV-1 gag-specific cytotoxic T lymphocytes recognize multiple highly conserved epitopes. Fine specificity of the gag-specific response defined by using unstimulated peripheral blood mononuclear cells and cloned effector cells. J Immunol 147:1512--1521, 1991.
R.P. Johnson, A.Trocha, T.M. Buchanan, &B.D. Walker. Identification of overlapping HLA class I-restricted cytotoxic T-cell epitopes in a conserved region of the human immunodeficiency virus type 1 envelope glycoprotein: definition of minimum epitopes and analysis of the effects of sequence variation. J Exp Med 175:961--971, 1992.
R.P. Johnson, A.Trocha, T.M. Buchanan, &B.D. Walker. Recognition of a highly conserved region of human immunodeficiency virus type 1 gp120 by an HLA-Cw4-restricted cytotoxic T-lymphocyte clone. J Virol 67:438--445, 1993.
R.P. Johnson, S.A. Hammond, A.Trocha, R.F. Siliciano, &B.D. Walker. Induction of a major histocompatibility complex class I-restricted cytotoxic T-lymphocyte response to a highly conserved region of human immunodeficiency virus type 1 (HIV-1) gp120 in seronegative humans immunized with a candidate HIV-1 vaccine. J Virol 68:3145--3153, 1994.
R.P. Johnson &B.D. Walker. CTL in HIV-1 infection: Responses to structural proteins. Curr Topics Microbiol Immunol 189:35--63, 1994.
P.Klenerman, G.Luzzi, K.McIntyre, R.Phillips, &A.McMichael. Identification of a novel HLA-A25 restricted epitope in a conserved region of p24 gag (positions 71-80). AIDS 10:348--350, 1996.
S.Koenig, T.R. Fuerst, L.V. Wood, R.M. Woods, J.A. Suzich, G.M. Jones, V.F. de la Cruz, R.T.D. Jr., S.Venkatesan, B.Moss, W.E. Biddison, &A.S. Fauci. Mapping the fine specificity of a cytotoxic T-cell response to HIV-1 Nef protein. J Immunol 145:127--135, 1990.
J.Lieberman, J.A. Fabry, M.-C. Kuo, P.Earl, B.Moss, &P.R. Skolnik. Cytotoxic T lymphocytes from HIV-1 seropositive individuals recognize immunodominant epitopes in gp160 and reverse transcriptase. J Immunol 148:2738--2747, 1992.
R.Maier, K.Falk, O.Rotzschke, B.Maier, V.Gnau, S.Stevanovic, G.Jung, H.G. Rammensee, &A.Meyerhans. Peptide motifs of HLA-A3, -A24, and -B7 molecules as determined by pool sequencing. Immunogenetics 40:306--8, 1994.
D.McKinney, D.Lewinson, S.Riddell, P.Greenberg, &D.Mosier. The Antiviral Activity of HIV-Specific CD8+ CTL clones is limited by elimination due to encounter with HIV-infected targets. J. Immuno 163:861--7, 1999.
A.J. McMichael &C.A. O'Callaghan. A New Look at T Cells. J Exp Med 187(9):1367--1371, 1998.
D.Nixon, A.Townsend, J.Elvin, C.Rizza, J.Gallway, \& A.McMichael. HIV-1 gag-specific cytotoxic T lymphocytes defined with recombinant vaccinia virus and synthetic peptides. Nature 336:484--487, 1988.
D.F. Nixon, D.Douek, P.J. Kuebler, X.Jin, M.Vesanen, S.Bonhoeffer, Y.Cao, R.A. Koup, D.D. Ho, &M.Markowitz. Molecular tracking of an Human Immunodeficiency Virus nef specific cytotoxic T-cell clone shows persistence of clone-specific T-cell receptor DNA but not mRNA following early combination antiretroviral therapy. Immunol Lett 66:219--28, 1999.
G.S. Ogg, X.Jin, S.Bonhoeffer, P.R. Dunbar, M.A. Nowak, S.Monard, J.P. Segal, Y.Cao, S.L. Rowland-Jones, V.Cerundolo, A.Hurley, M.Markowitz, D.D. Ho, D.F. Nixon, &A.J. McMichael. Quantitation of HIV-1-specific cytotoxic T lymphocytes and plasma load of viral RNA. Science 279:2103--6, 1998.
[Ogg (1999)]Ogg99 G.S. Ogg, X.Jin, S.Bonhoeffer, P.Moss, M.A. Nowak, S.Monard, J.P. Segal, Y.Cao, S.L. Rowland-Jones, A.Hurley, M.Markowitz, D.D. Ho, A.J. McMichael, &D.F. Nixon. Decay kinetics of human immunodeficiency virus-specific effector cytotoxic T lymphocytes after combination antiretroviral therapy. J Virol 73:797--800, 1999.
K.C. Parker, M.A. Bednarek, L.K. Hull, U.Utz, B.C. H.J. Zweerink, W.E. Biddison, &J.E. Coligan. Sequence motifs important for peptide binding to the human MHC class I molecule, HLA-A2. J Immunol 149, 1992.
K.C. Parker, M.A. Bednarek, &J.E. Coligan. Scheme for ranking potential HLA-A2 binding peptides based on independent binding of individual peptide side-chains. J Immunol 152, 1994.
D.A. Price, P.J. Goulder, P.Klenerman, A.K. Sewell, P.J. Easterbrook, M.Troop, C.R. Bangham, &R.E. Phillips. Positive selection of HIV-1 cytotoxic T lymphocyte escape variants during primary infection. Proc Natl Acad Sci USA 94:1890--5, 1997.
H.-G. Rammensee, T.Friede, &S.Stevanovic. MHC ligands and peptide motifs: first listing. Immunogenetics 41:178--228, 1995.
H.Rammensee, J.Bachmann, N.Emmerich, &S.Stevanovic. SYFPEITHI: An Internet Database for MHC Ligands and Peptide Motifs. 1999.
S.L. Rowland-Jones, S.H. Powis, J.Sutton, I.Mockridge, F.M. Gotch, N.Murray, A.B. Hill, W.M. Rosenberg, J.Trowsdale, \& A.J. McMichael. An antigen processing polymorphism revealed by HLA-B8-restricted cytotoxic T lymphocytes which does not correlate with TAP gene polymorphism. Eur J Immunol 23:1999--2004, 1993.
S.L. Rowland-Jones, J.Sutton, K.Ariyoshi, T.Dong and , F.Gotch, S.McAdam, D.Whitby, S.Sabally, A.Gallimore, T.Corrah, M.Takiguchi, T.Schultz, A.McMichael, &H.Whittle. HIV-specific cytotoxic T-cells in HIV-exposed but uninfected Gambian women. Nature Medicine 1:59--64, 1995.
S.L. Rowland-Jones, T.Dong, K.R. Fowke, J.Kimani, P.Krausa, H.Newell, T.Blanchard, K.Ariyoshi, J.Oyugi, E.Ngugi, J.Bwayo, K.S. MacDonald, A.J. McMichael, &F.A. Plummer. Cytotoxic T cell responses to multiple conserved HIV epitopes in HIV- resistant prostitutes in Nairobi [see comments]. J Clin Invest 102:1758--65, 1998.
J.T. Safrit, C.A. Andrews, T.Zhu, D.D. Ho, &R.A. Koup. Characterization of human immunodeficiency virus type 1-specific cytotoxic T lymphocyte clones isolated during acute seroconversion: recognition of autologous virus sequences within a conserved immunodominant epitope. J Exp Med 179:463--472, 1994a.
J.T. Safrit, A.Y. Lee, C.A. Andrews, &R.A. Koup. A region of the Third Variable Loop of HIV-1 gp120 is recognized by HLA-B7-Restricted CTLs from two acute seroconversion patients. J Immunol 153:3822--3830, 1994b.
J.E. Schmitz, M.J. Kuroda, S.Santra, V.G. Sasseville, M.A. Simon, M.A. Lifton, P.Racz, K.Tenner-Racz, M.Dalesandro, B.J. Scallon, J.Ghrayeb, M.A. Forman, D.C. Montefiori, E.P. Rieber, N.L. Letvin, &K.A. Reimann. Control of viremia in simian immunodeficiency virus infection by CD8+ lymphocytes. Science 283:857--60, 1999.
F.H. Seeger, D.Arnold, T.Dumrese, H.de la Salle, D.Fricker, H.Schild, H.G. Rammensee, &S.Stevanovic. The HLA-B* 1516 motif demonstrates HLA-B-specific P2 pocket characteristics. Immunogenetics 48:156--60, 1998.
P.Shankar, J.A. Fabry, D.M. Fong, &J.Lieberman. Three regions of HIV-1 gp160 contain clusters of immunodominant CTL epitopes. Immunol Lett 52:23--30, 1996.
H.Shiga, T.Shioda, H.Tomiyama, Y.Takamiya, S.Oka, S.Kimura, Y.Yamaguchi, T.Gojoubori, H.G. Rammensee, K.Miwa, \& M.Takiguchi. Identification of multiple HIV-1 cytotoxic T-cell epitopes presented by human leukocyte antigen B35 molecule. AIDS 10:1075--1083, 1996.
N.V. Sipsas, S.A. Kalams, A.Trocha, S.He, W.A. Blattner, B.D. Walker, &R.P. Johnson. Identification of type-specific cytotoxic T lymphocyte responses to homologous viral proteins in laboratory workers accidentally infected with HIV-1. J Clin Invest 99:752--62, 1997.
J.Sutton, S.Rowland-Jones, W.Rosenberg, D.Nixon, F.Gotch, X.-M. Gao, N.Murray, A.Spoonas, P.Driscoll, M.Smith, A.Willis, \& A.McMichael. A sequence pattern for peptides presented to cytotoxic T lymphocytes by HLA B8 revealed by analysis of epitopes and eluted peptides. Eur J Immunol 23:447--453, 1993.
K.Takahashi, L.-C. Dai, T.R. Fuerst, W.E. Biddison, P.L. Earl, B.Moss, &F.A. Ennis. Specific lysis of human immunodeficiency virus type 1-infected cells by a HLA-A3.1-restricted CD8+ cytotoxic T-lymphocyte clone that recognizes a conserved peptide sequence within the gp41 subunit of the envelope protein. Proc Natl Acad Sci USA 88:10277--10281, 1991.
J.Tang, C.Costello, I.P. Keet, C.Rivers, S.Leblanc, E.Karita, S.Allen, &R.A. Kaslow. HLA class I homozygosity accelerates disease progression in human. AIDS Res Hum Retroviruses 15:317--24, 1999.
S.C. Threlkeld, P.A. Wentworth, S.A. Kalams, B.M. Wilkes, D.J. Ruhl, E.Kepgh, J.Sidney, S.Southwood, B.D. Walker, \& A.Sette. Degenerate and promiscuous recognition by CTL of peptides presented by the MHC class I A3-like superfamily. J Immunol 159(4):1648--1657, 1997.
T.J. Tsomides, B.D. Walker, &H.N. Eisen. An optimal viral peptide recognized by CD8+ T-cells binds very tightly to the restricting class I major histocompatibility complex protein on intact cells but not to the purified class I protein. Proc Natl Acad Sci USA 88:11276--11280, 1991.
[van Baalen (1996)]
C.A. van Baalen, M.R. Klein, R.C. Huisman, M.E. Dings, S.R. Kerkhof Garde, A.M. Geretti, R.Gruters, C.A. van Els, F.Miedema, &A.D. Osterhaus. Fine-specificity of cytotoxic T lymphocytes which recognize conserved epitopes of the Gag protein of human immunodeficiency virus type 1. J Gen Virol 77:1659--1665, 1996.
[van der Burg (1997)]
S.H. van der Burg, M.R. Klein, O.Pontesilli, A.M. Holwerda, J.Drijfhout, W.M. Kast, F.Miedema, &C.J.M. Melief. HIV-1 reverse transcriptase-specific CTL against conserved epitopes do not protect against progression to AIDS. J Immunol 159:3648--3654, 1997.
B.D. Walker, C.Flexner, K.Birch-Limberger, L.Fisher, T.J. Paradis, A.Aldovini, R.Young, B.Moss, &R.T. Schooley. Long-term culture and fine specificity of human cytotoxic T-lymphocyte clones reactive with human immunodeficiency virus type 1. Proc Natl Acad Sci USA 86:9514--9518, 1989.
C.C. Wilson, S.A. Kalams, B.M. Wilkes, D.J. Ruhl, F.Gao, B.H. Hahn, I.C. Hanson, K.Luzuriaga, S.Wolinsky, R.Koup, S.P. Buchbinder, R.P. Johnson, &B.D. Walker. Overlapping epitopes in human immunodeficiency virus type 1 gp120 presented by HLA A, B, and C molecules: effects of viral variation on cytotoxic T-lymphocyte recognition. J Virol 71:1256--64, 1997.
C.C. Wilson, R.C. Brown, B.T. Korber, B.M. Wilkes, D.J. Ruhl, D.Sakamoto, K.Kunstman, K.Luzuriaga, I.C. Hanson, S.M. Widmayer, A.Wiznia, S.Clapp, A.J. Ammann, R.A. Koup, S.M. Wolinsky, &B.D. Walker. Frequent detection of escape from cytotoxic T-lymphocyte recognition in perinatal human immunodeficiency virus (HIV) type 1 transmission: the ariel project for the prevention of transmission of HIV from mother to infant. J Virol 73:3975--85, 1999.
Q.-I. Zhang, R.Gavioli, G.Klein, &M.G. Masucci. An HLA-All-specific motif in nonamer peptides derived from viral and cellular proteins. Proc Natl Acad Sci USA 90:2217--2221, 1993.