Search CTL/CD8+ T-Cell Epitope Database

Found 20 matching records:

Displaying record number 60324

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79)
Epitope	`TPQVPLRPM`	Epitope Alignment
Epitope Name	TM9
Species (MHC/HLA)	human(A*30)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, optimal epitope, chronic infection

Notes

Correlation between HLA class I and spontaneous control of HIV-1 was significant for 7-8 epitopes when 341 chronic, HIV-infected subjects, divided into controllers and non-controllers, were tested for EliSpot responses to 257 optimally defined epitopes. 21 epitopes were associated with viral progression. Protective epitopes tend to cluster in regions of critical stability for the protein, therefore constraining escape.
TPQVPLRPM had a significantly positive association with HLA A*30; it was recognized by 7/52 A*30-positive subjects and 12/278 A*30-negative subjects.

References

Pereyra2014 Florencia Pereyra, David Heckerman, Jonathan M. Carlson, Carl Kadie, Damien Z. Soghoian, Daniel Karel, Ariel Goldenthal, Oliver B. Davis, Charles E. DeZiel, Tienho Lin, Jian Peng, Alicja Piechocka, Mary Carrington, and Bruce D. Walker. HIV Control Is Mediated in Part by CD8+ T-Cell Targeting of Specific Epitopes. J. Virol., 88(22):12937-12948, Nov 2014. PubMed ID: 25165115. Show all entries for this paper.

Displaying record number 60323

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79)
Epitope	`TPQVPLRPM`	Epitope Alignment
Epitope Name	TM9
Species (MHC/HLA)	human(A*34)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, optimal epitope, chronic infection

Notes

Correlation between HLA class I and spontaneous control of HIV-1 was significant for 7-8 epitopes when 341 chronic, HIV-infected subjects, divided into controllers and non-controllers, were tested for EliSpot responses to 257 optimally defined epitopes. 21 epitopes were associated with viral progression. Protective epitopes tend to cluster in regions of critical stability for the protein, therefore constraining escape.
TPQVPLRPM had a significantly positive association with HLA A*34; it was recognized by 4/11 A*34-positive subjects and 19/330 A*34-negative subjects.

References

Displaying record number 60326

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79)
Epitope	`TPQVPLRPM`	Epitope Alignment
Epitope Name	TM9
Species (MHC/HLA)	human(A*68:02)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, optimal epitope, chronic infection

Notes

Correlation between HLA class I and spontaneous control of HIV-1 was significant for 7-8 epitopes when 341 chronic, HIV-infected subjects, divided into controllers and non-controllers, were tested for EliSpot responses to 257 optimally defined epitopes. 21 epitopes were associated with viral progression. Protective epitopes tend to cluster in regions of critical stability for the protein, therefore constraining escape.
TPQVPLRPM had a significantly positive association with HLA A*6802; it was recognized by 3/22 A*6802-positive subjects and 8/255 A*6802-negative subjects.

References

Displaying record number 56403

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79)
Epitope	`TPQVPLRPM`	Epitope Alignment
Epitope Name	TM9
Subtype	B
Species (MHC/HLA)	human(B*07)
Immunogen	HIV-1 infection
Country	Australia, Canada, Germany, United States
Experimental methods
Keywords	escape, HLA associated polymorphism

Notes

98 newly infected patients were studied to track early host HLA and Gag/Pol/Nef epitope immune responses' association with viral evolution. Response hierarchies were the same as those for later infection, and 50% of the most rapidly substituting epitopes were restricted by protective HLA, e.g. Gag B*57-associated mutations which were the most rapidly reverting upon transmission to a non-B*57-host. While there are great differences in mutation rates and reversions across the HIV proteome, most early viral change is driven by immune pressure.
HLA-driven epitope evolution was seen in 80% of published CTL epitopes.
Escape (and reversion) rates for B*57-restricted epitopes were highest for Gag-TW10 (TSTLQEQIGW) > RT-IW9 (IVLPEKDSW) > Nef-YY9 (YTPGPGIRY) > Nef-HW9 (HTQGYFPDW) > Gag-IW9 (ISPRTLNAW) > Gag-KF11 (KAFSPEVIPMF) .

References

Brumme2008 Zabrina L. Brumme, Chanson J. Brumme, Jonathan Carlson, Hendrik Streeck, Mina John, Quentin Eichbaum, Brian L Block, Brett Baker, Carl Kadie, Martin Markowitz, Heiko Jessen, Anthony D. Kelleher, Eric Rosenberg, John Kaldor, Yuko Yuki, Mary Carrington, Todd M. Allen, Simon Mallal, Marcus Altfeld, David Heckerman, and Bruce D. Walker. Marked Epitope- and Allele-Specific Differences in Rates of Mutation in Human Immunodeficiency Type 1 (HIV-1) Gag, Pol, and Nef Cytotoxic T-Lymphocyte Epitopes in Acute/Early HIV-1 Infection. J. Virol., 82(18):9216-9227, Sep 2008. PubMed ID: 18614631. Show all entries for this paper.

Displaying record number 1788

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79)
Epitope	`TPQVPLRPM`	Epitope Alignment
Species (MHC/HLA)	human(B*07)
Immunogen	HIV-1 infection
Experimental methods
Keywords	rate of progression, acute/early infection

Notes

The CTL response to optimally defined CTL epitopes restricted by HLA class I A and B alleles in individuals who coexpressed HLA A*02, A*03, and B*07 was studied in eight HIV-1-infected subjects, two with acute infection, five with chronic, and one long-term non-progressor (LTNP)
2 to 17 epitopes were recognized in a given individual, A*02-restricted CTL response tended to be narrow and never dominated the response, and 25/27 epitopes were targeted by at least one person.
Subjects with chronic HIV-1 infection recognized between 2-8 out of 11 B*07-restricted epitopes.
An acute seroconvertor homozygous for the B*07 allele recognized five B*07-restricted epitopes.
The other acute seroconvertor failed to recognize any of the 11 B*07-restricted epitopes tested.
The B*07-restricted CTL response was highly variable and there was no clearly dominant epitope.

References

Day2001 C. L. Day, A. K. Shea, M. A. Altfeld, D. P. Olson, S. P. Buchbinder, F. M. Hecht, E. S. Rosenberg, B. D. Walker, and S. A. Kalams. Relative dominance of epitope-specific cytotoxic T-lymphocyte responses in human immunodeficiency virus type 1-infected persons with shared HLA alleles. J. Virol., 75(14):6279-91, Jul 2001. URL: http://jvi.asm.org/cgi/content/full/75/14/6279. PubMed ID: 11413294. Show all entries for this paper.

Displaying record number 1141

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79 LAI)
Epitope	`TPQVPLRPM`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B*07:02)
Immunogen	HIV-1 infection
Experimental methods
Keywords	optimal epitope, A-list

Notes

C. Brander notes this is a B*0702 epitope.

References

Llano2019 Anuska Llano, Samandhy Cedeño, Sandra Silva Arrieta, and Christian Brander. The 2019 Optimal HIV CTL Epitopes Update: Growing Diversity in Epitope Length and HLA restriction. 2019. Show all entries for this paper.

Displaying record number 59220

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79)
Epitope	`TPQVPLRPM`	Epitope Alignment
Epitope Name	Nef 71-79
Subtype	B
Species (MHC/HLA)	human(B*35)
Immunogen	vaccine
Country	France
Experimental methods	CD8 T-cell Elispot - IFNγ, Degranulation, CD107a and b cell surface mobilization, Intracellular cytokine staining, Tetramer binding
Keywords	vaccine-induced immune responses

Vaccine Details

Vaccine type	lipopeptide

Notes

HIV-specific memory CTL responses from 16 lipopeptide-vaccinated uninfected unvaccinated subjects were fully characterized with respect to magnitude and multifunctionality, comparing them to FLU- or EBV-CTL. 62% of total secreting T cells produced IFN-γ in response to HIV (compared to 35% for FLU and EBV). HIV-specific CTL secreted either IFN-γ or TNF-α, not both as in FLU- and EBV-specific CTL. The more limited functional profile and magnitude of expanded CTL response against HIV mirrors its less effective vaccines.
Nef 71-79, TPQVPLRPMTY, lipopeptide was able to stimulate expanded effector CTLs that produced >600 SFC/10⁵ cells in EliSpot as opposed to none in 1 unvaccinated subject.

References

Figueiredo2014 Suzanne Figueiredo, Benedicte Charmeteau, Mathieu Surenaud, Dominique Salmon, Odile Launay, Jean-Gérard Guillet, Anne Hosmalin, and Hanne Gahery. Memory CD8+ T Cells Elicited by HIV-1 Lipopeptide Vaccines Display Similar Phenotypic Profiles but Differences in Term of Magnitude and Multifunctionality Compared with FLU- or EBV-Specific Memory T Cells in Humans. Vaccine, 32(4):492-501, 16 Jan 2014. PubMed ID: 24291199. Show all entries for this paper.

Displaying record number 52125

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79 BRU)
Epitope	`TPQVPLRPM`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B35)
Immunogen	HIV-1 infection
Experimental methods
Keywords	binding affinity, epitope processing

Notes

Seventy-three 8-11 mer peptides were generated based on putative anchor motifs in the Nef BRU sequence for HLA A2, A3, A24, B7, B8, and B35; these 73 peptides had 81 motifs. 54% bound to the predicted HLA molecule, particularly A2, B7/35, and B8. The strength of HLA-peptide binding was not directly related to the number of individuals that recognized a protein.
20s proteasome cleavage of the Nef protein positions 66-100 showed a large fraction of peptides were cleaved ending at: 87L, 83A, 81Y, 71P, 68F and 67G. The frequency of recognition may be in part dictated by the cleavage step in processing.
TPQVPLRPM was recognized in 1/10 (10%) of individuals with HLA B7, and 1/10 (10%) of individuals with HLA B35. It was a moderate affinity HLA binder.

References

Choppin2001 Jeannine Choppin, William Cohen, Albert Bianco, Jean-Paul Briand, Francine Connan, Marc Dalod, and Jean-Gérard Guillet. Characteristics of HIV-1 Nef Regions Containing Multiple CD8+ T Cell Epitopes: Wealth of HLA-Binding Motifs and Sensitivity to Proteasome Degradation. J. Immunol., 166(10):6164-6169, 15 May 2001. PubMed ID: 11342637. Show all entries for this paper.

Displaying record number 57223

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef
Epitope	`TPQVPLRPM`	Epitope Alignment
Species (MHC/HLA)	human(B42)
Immunogen	HIV-1 infection
Country	Kenya
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	mother-to-infant transmission

Notes

HIV-1 peptide-specific IFN-γ responses were measured over the first year of life for vertically-infected infants. Late-infected infants (between months 1 and 12) had responses that were more rapid and more focused than those infected before 1 month of life.
2/5 infants tested recognized TPQVPLRPM.

References

Lohman-Payne2009 B. Lohman-Payne, J. A. Slyker, B. A. Richardson, C. Farquhar, M. Majiwa, E. Maleche-Obimbo, D. Mbori-Ngacha, J. Overbaugh, S. Rowland-Jones, and G. John-Stewart. Infants with Late Breast Milk Acquisition of HIV-1 Generate Interferon-gamma Responses More Rapidly than Infants with Early Peripartum Acquisition. Clin. Exp. Immunol., 156(3):511-517, Jun 2009. PubMed ID: 19438605. Show all entries for this paper.

Displaying record number 55214

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location
Epitope	`TPQVPLRPM`	Epitope Alignment
Species (MHC/HLA)	human(B7)
Immunogen	HIV-1 infection
Country	United States
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	supertype, HLA cross-presentation, optimal epitope

Notes

100 HIV-infected subjects were tested for response to optimally-defined CTL epitopes regardless of the subject's HLA type. Half of all detected responses were seen in the absence of the originally reported restricting HLA class I allele, and only 3% of epitopes were recognized exclusively in the presence of their original allele. Statistical and experimental methods were used to define additional HLA alleles associated with the epitopes.
In addition to its known HLA association (B07), AN additional HLA (B42) was statistically predicted to be associated with this optimal epitope.

References

Frahm2007b Nicole Frahm, Karina Yusim, Todd J. Suscovich, Sharon Adams, John Sidney, Peter Hraber, Hannah S. Hewitt, Caitlyn H. Linde, Daniel G. Kavanagh, Tonia Woodberry, Leah M. Henry, Kellie Faircloth, Jennifer Listgarten, Carl Kadie, Nebojsa Jojic, Kaori Sango, Nancy V. Brown, Eunice Pae, M. Tauheed Zaman, Florian Bihl, Ashok Khatri, Mina John, Simon Mallal, Francesco M. Marincola, Bruce D . Walker, Alessandro Sette, David Heckerman, Bette T. Korber, and Christian Brander. Extensive HLA Class I Allele Promiscuity among Viral CTL Epitopes. Eur. J. Immunol., 37(9):2419-2433, Sep 2007. PubMed ID: 17705138. Show all entries for this paper.

Displaying record number 52166

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79)
Epitope	`TPQVPLRPM`	Epitope Alignment
Epitope Name	B7-TM9
Subtype	B
Species (MHC/HLA)	human(B7)
Immunogen	HIV-1 infection
Patient MHC/HLA	A3, B7, Cw7
Experimental methods
Keywords	dynamics, supervised treatment interruptions (STI), acute/early infection

Notes

CTL responses in 18 acutely HIV-infected HLA-A3 (n=7) or -B7 (n=4) or both -A3 and B7 (n=7) positive individuals were studied.
One individual, AC-06, was homozygous at all three class I alleles (A3, B7, Cw7), was treated during acute infection and had supervised treatment interruptions (STI). He had only two detectable CTL responses during acute infection, but after STI this broadened to 27 distinct epitopes including 15 restricted by HLA-A3, 11 by HLA-B7, and 1 by HLA-Cw7.
0/11 HLA-B7 individuals had detectable B7-restricted responses to this epitope during acute infection -- 10/15 of HLA-B7 epitopes tested were targeted by at least one person during acute infection. 2/4 individuals had detectable responses to this epitope after STI.

References

Yu2002b Xu G. Yu, Marylyn M. Addo, Eric S. Rosenberg, William R. Rodriguez, Paul K. Lee, Cecily A. Fitzpatrick, Mary N. Johnston, Daryld. Strick, Philip J. R. Goulder, Bruce D. Walker, and Marcus Altfeld. Consistent Patterns in the Development and Immunodominance of Human Immunodeficiency Virus Type 1 (HIV-1)-Specific CD8+ T-Cell Responses Following Acute HIV-1 Infection. J. Virol., 76(17):8690-8701, Sep 2002. PubMed ID: 12163589. Show all entries for this paper.

Displaying record number 57176

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location
Epitope	`TPQVPLRPM`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B7)
Immunogen	HIV-1 infection
Country	United States
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	acute/early infection

Notes

To compare the prevalence and immunodominance of CTL responses to conserved and variable epitopes, CTL responses were analyzed in 45 HIV-1 B-infected males during primary and/or chronic infection. Conserved and variable CTL epitopes were recognized with similar probabilities, but conserved epitopes generally elicited subdominant responses. Low viral loads were associated with Gag-specific responses during acute infection, but with Env-specific responses during chronic infection.
Among 5 B7-positive subjects tested during chronic infection, 3 recognized TPQVPLRPM, and none had an immunodominant response to it.

References

Liu2009c Yi Liu, John McNevin, Morgane Rolland, Hong Zhao, Wenjie Deng, Janine Maenza, Claire E. Stevens, Ann C. Collier, M. Juliana McElrath, and James I. Mullins. Conserved HIV-1 Epitopes Continuously Elicit Subdominant Cytotoxic T-Lymphocyte Responses. J. Infect. Dis., 200(12):1825-1833, 15 Dec 2009. PubMed ID: 19909083. Show all entries for this paper.

Displaying record number 57833

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef
Epitope	`TPQVPLRPM`	Epitope Alignment
Epitope Name	TM9
Subtype	B
Species (MHC/HLA)	human(B7)
Immunogen	HIV-1 infection
Country	United States
Experimental methods	CD8 T-cell Elispot - IFNγ, TCR binding
Keywords	rate of progression, TCR usage, optimal epitope

Notes

The study measured the functional avidities of HIV-specific CTL responses targeting 20 optimally defined CTL epitopes in a cohort of 44 HIV controllers and 68 non-controllers. Highest functional avidities were toward HLA-B-restricted epitopes in Gag. Avidities were higher in HIV controllers than non-controllers. Higher-avidity T-cell populations had narrower TCR repertoires.
TPQVPLRPM was one of 20 optimal epitopes tested.

References

Berger2011 Christoph T. Berger, Nicole Frahm, David A. Price, Beatriz Mothe, Musie Ghebremichael, Kari L. Hartman, Leah M. Henry, Jason M. Brenchley, Laura E. Ruff, Vanessa Venturi, Florencia Pereyra, John Sidney, Alessandro Sette, Daniel C. Douek, Bruce D. Walker, Daniel E. Kaufmann, and Christian Brander. High-Functional-Avidity Cytotoxic T Lymphocyte Responses to HLA-B-Restricted Gag-Derived Epitopes Associated with Relative HIV Control. J. Virol., 85(18):9334-9345, Sep 2011. PubMed ID: 21752903. Show all entries for this paper.

Displaying record number 1571

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79 SF2)
Epitope	`TPQVPLRPM`	Epitope Alignment
Species (MHC/HLA)	human(B7)
Immunogen	HIV-1 infection
Experimental methods
Keywords	HAART, ART, acute/early infection

Notes

Therapy provided during acute infection resulted in a narrower CTL response, stronger T help response, and a less diverse viral population than was seen in individuals treated during chronic infection.
The breadth and specificity of the response was determined using ELISPOT by studying 19 individuals with pre-seroconversion therapy (Group 1), 11 individuals with primary infection but post-seroconversion therapy (Group 2), and 10 individuals who responded to HAART given during chronic infection (Group 3), using 259 overlapping peptides spanning p17, p24, RT, gp41, gp120 and Nef.
Previously described and newly defined optimal epitopes were tested for CTL response.
Number of HLA-B7+ individuals that had a CTL response to this epitope broken down by group: 0/4 group 1, 0/3 group 2, and 1/1 group 3.

References

Altfeld2001b M. Altfeld, E. S. Rosenberg, R. Shankarappa, J. S. Mukherjee, F. M. Hecht, R. L. Eldridge, M. M. Addo, S. H. Poon, M. N. Phillips, G. K. Robbins, P. E. Sax, S. Boswell, J. O. Kahn, C. Brander, P. J. Goulder, J. A. Levy, J. I. Mullins, and B. D. Walker. Cellular immune responses and viral diversity in individuals treated during acute and early HIV-1 infection. J. Exp. Med., 193(2):169-80, 15 Jan 2001. URL: http://www.jem.org/cgi/content/full/193/2/169. PubMed ID: 11148221. Show all entries for this paper.

Displaying record number 53556

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(180-187)
Epitope	`TPQVPLRPM`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B7)
Immunogen	HIV-1 infection
Patient MHC/HLA	A1, A3, B57, B7, Cw6, Cw7
Country	United States
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords

Notes

Two-thirds of all mutations arising in non-envelope proteins during the transition from acute to chronic infection were found to be due to either CD8 T-cell-associated selective pressures or reversion of HLA-I-associated mutations selected in a previous host.The predominance of escape mutations at highly polymorphic sites was observed across different HIV-1 clades.
This epitope was reactive, but escape mutations did not accrue in it over time.

References

Allen2005a Todd M. Allen, Marcus Altfeld, Shaun C. Geer, Elizabeth T. Kalife, Corey Moore, Kristin M. O'Sullivan, Ivna DeSouza, Margaret E. Feeney, Robert L. Eldridge, Erica L. Maier, Daniel E. Kaufmann, Matthew P. Lahaie, Laura Reyor, Giancarlo Tanzi, Mary N. Johnston, Christian Brander, Rika Draenert, Jurgen K. Rockstroh, Heiko Jessen, Eric S. Rosenberg, Simon A. Mallal, and Bruce D. Walker. Selective Escape from CD8+ T-Cell Responses Represents a Major Driving Force of Human Immunodeficiency Virus Type 1 (HIV-1) Sequence Diversity and Reveals Constraints on HIV-1 Evolution. J. Virol., 79(21):13239-13249, Nov 2005. PubMed ID: 16227247. Show all entries for this paper.

Displaying record number 54335

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef
Epitope	`TPQVPLRPM`	Epitope Alignment
Epitope Name	B7-TM9(Nef)
Species (MHC/HLA)	human(B7)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	rate of progression, immunodominance, early-expressed proteins

Notes

Immunodominant HIV epitopes in early, primary infection of CTLs were identified and the relative contributions of immune responses restricted to individual HLA class I molecules were studied.
This epitope-HLA combination was recognized. The most frequently recognized epitopes also elicited the greatest CTL response.
HIV-1 Epitope sequence variability was not correlated with immunodominant versus immune sub-dominant responses.
HLA-B*57 and HLA-B*27 restricted responses were the strongest in these early and acute infections - due to dominant responses to a single epitope in each case (TW10 for B*57 and KK10 for B*27).
In the presence of HLA-B*57 and HLA-B*27 restricted responses, the relative contributions of other restricting HLA dropped greatly.

References

Altfeld2006 Marcus Altfeld, Elizabeth T. Kalife, Ying Qi, Hendrik Streeck, Mathias Lichterfeld, Mary N. Johnston, Nicole Burgett, Martha E. Swartz, Amy Yang, Galit Alter, Xu G. Yu, Angela Meier, Juergen K. Rockstroh, Todd M. Allen, Heiko Jessen, Eric S. Rosenberg, Mary Carrington, and Bruce D. Walker. HLA Alleles Associated with Delayed Progression to AIDS Contribute Strongly to the Initial CD8+ T Cell Response against HIV-1. PLoS Med., 3(10):e403, Oct 2006. PubMed ID: 17076553. Show all entries for this paper.

Displaying record number 52124

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79 BRU)
Epitope	`TPQVPLRPM`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B7)
Immunogen	HIV-1 infection
Experimental methods
Keywords	binding affinity, epitope processing

Notes

Seventy-three 8-11 mer peptides were generated based on putative anchor motifs in the Nef BRU sequence for HLA A2, A3, A24, B7, B8, and B35; these 73 peptides had 81 motifs. 54% bound to the predicted HLA molecule, particularly A2, B7/35, and B8. The strength of HLA-peptide binding was not directly related to the number of individuals that recognized a protein.
20s proteasome cleavage of the Nef protein positions 66-100 showed a large fraction of peptides were cleaved ending at: 87L, 83A, 81Y, 71P, 68F and 67G. The frequency of recognition may be in part dictated by the cleavage step in processing.
TPQVPLRPM was recognized in 1/10 (10%) of individuals with HLA B7, and 1/10 (10%) individuals with HLA B35. It was a moderate affinity HLA binder.

References

Displaying record number 52271

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef
Epitope	`TPQVPLRPM`	Epitope Alignment
Epitope Name	B7-TM9(Nef)
Subtype	B
Species (MHC/HLA)	human(B7)
Immunogen	HIV-1 infection
Patient MHC/HLA	A32, B14, B7; A24, B27, B7
Experimental methods
Keywords	HAART, ART, supervised treatment interruptions (STI)

Notes

Peripheral blood (PB) and lymph node (LN) CD8+ T-cell responses were compared in 15 asymptomatic HIV-1 infected patients using all known optimal CTL epitopes (http://hiv-web.lanl.gov/content/hiv-db/REVIEWS/brander2001.html) for each person's class I HLA alleles.
60 epitope responses were detected in both PB and LN samples of the 15 patients, and an additional 8 responses were detected only in LN. The total magnitude of the response was similar in LN and PB, but the percentage of CD8+ T cells in the LN is lower so the number of HIV-specific cells per million CD8+ T-cells is higher in the LN.
1 year post-HAART treatment in five patients studied, the magnitude of the CD8 T-cell response was decreased in both LN and PB, but more dramatically in PB, and 13/25 epitope responses in the PB became undetectable, in contrast to 5/26 in the LN.
Treatment interruption following HAART induced resulted in increased viremia accompanied by the restoration of the detection of 13 epitopes that had become undetectable in the PB, and the addition of 9 novel epitope responses.
Breakdowns of epitope responses were shown for 4 individuals. Patient A displayed the greatest response to epitope B14-EL9(gp41), a strong response to B7-TL9(p24), and responses to B7-TM9(Nef) and A32-PW10(RT). Patient C displayed the greatest response to B27-KK10(p24), and in decreasing order also responded to A24-RW8(Nef), B7-IL9(gp41), A24-RL9(gp41), A24-YL8(gp41), and B7-TM9(Nef).

References

Altfeld2002 Marcus Altfeld, Jan van Lunzen, Nicole Frahm, Xu G. Yu, Claus Schneider, Robert L. Eldridge, Margaret E. Feeney, Dirk Meyer-Olson, Hans-Juergen Stellbrink, and Bruce D. Walker. Expansion of Pre-existing, Lymph Node-localized CD8+ T Cells During Supervised Treatment Interruptions in Chronic HIV-1 Infection. J. Clin. Invest., 109(6):837-843, Mar 2002. PubMed ID: 11901192. Show all entries for this paper.

Displaying record number 60325

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79)
Epitope	`TPQVPLRPM`	Epitope Alignment
Epitope Name	TM9
Species (MHC/HLA)	human(B*78)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, optimal epitope, chronic infection

Notes

Correlation between HLA class I and spontaneous control of HIV-1 was significant for 7-8 epitopes when 341 chronic, HIV-infected subjects, divided into controllers and non-controllers, were tested for EliSpot responses to 257 optimally defined epitopes. 21 epitopes were associated with viral progression. Protective epitopes tend to cluster in regions of critical stability for the protein, therefore constraining escape.
TPQVPLRPM had a significantly positive association with HLA B*78; it was recognized by 1/1 B*78-positive subjects and 11/277 B*78-negative subjects.

References

Displaying record number 52950

Download this epitope record as JSON.

HXB2 Location	Nef(71-79) DNA(9007..9033)	Nef Epitope Map
Author Location	Nef(71-79)
Epitope	`TPQVPLRPM`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B7 supertype)
Immunogen	vaccine
Experimental methods	CD8 T-cell Elispot - IFNγ, Chromium-release assay, Proliferation
Keywords	vaccine-induced immune responses, variant cross-reactivity

Vaccine Details

Vaccine type	lipopeptide
Vaccine strain	B clade LAI
Vaccine component	Env, Gag, Nef
Adjuvant	QS21

Notes

After injection of an anti-HIV-1 lipopeptide vaccine and the booster injections, a response was observed in >85% of 28 volunteers, and a long-term immune response was observed in >50% of the volunteers. A positive effect of QS21 adjuvant was found for B-and CD4+T-cell responses. A higher number of CD8+ T-cell epitopes was induced after a fourth boost injection. This epitope was one of the most frequently recognized of the 31 epitopes that the vaccinated volunteers responded to.

References

Gahery-Segard2003 Hanne Gahéry-Ségard, Gilles Pialoux, Suzanne Figueiredo, Céline Igéa, Mathieu Surenaud, Jessintha Gaston, Helene Gras-Masse, Jean-Paul Lévy, and Jean-Gérard Guillet. Long-Term Specific Immune Responses Induced in Humans by a Human Immunodeficiency Virus Type 1 Lipopeptide Vaccine: Characterization of CD8+-T-Cell Epitopes Recognized. J. Virol., 77(20):11220-11231, Oct 2003. PubMed ID: 14512570. Show all entries for this paper.