Search CTL/CD8+ T-Cell Epitope Database

Found 16 matching records:

Displaying record number 59895

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev(14-23)
Epitope	`KAVRLIKFLY`	Epitope Alignment
Epitope Name	KY10
Species (MHC/HLA)	human(A*23)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, optimal epitope

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.
KAVRLIKFLY had a significantly positive association with HLA A*23; it was recognized by 2/6 A*23-positive subjects and 5/144 A*23-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 59894

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev(14-23)
Epitope	`KAVRLIKFLY`	Epitope Alignment
Epitope Name	KY10
Species (MHC/HLA)	human(B*1503)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, optimal epitope

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.
KAVRLIKFLY had a significantly positive association with HLA B*1503; it was recognized by 3/8 B*1503-positive subjects and 7/150 B*1503-negative subjects.

References

Displaying record number 59891

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev(14-23)
Epitope	`KAVRLIKFLY`	Epitope Alignment
Epitope Name	KY10
Species (MHC/HLA)	human(B*18)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, optimal epitope

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.
KAVRLIKFLY had a significantly positive association with HLA B*18; it was recognized by 11/20 B*18-positive subjects and 44/284 B*18-negative subjects.

References

Displaying record number 59893

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev(14-23)
Epitope	`KAVRLIKFLY`	Epitope Alignment
Epitope Name	KY10
Species (MHC/HLA)	human(B3501, B3508)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, optimal epitope

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.
KAVRLIKFLY had a significantly positive association with HLA B*3501,B*3508; it was recognized by 8/30 B*3501,B*3508-positive subjects and 10/158 B*3501,B*3508-negative subjects.

References

Displaying record number 59890

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev(14-23)
Epitope	`KAVRLIKFLY`	Epitope Alignment
Epitope Name	KY10
Species (MHC/HLA)	human(B3502, B3503, B*5301)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, optimal epitope

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.
KAVRLIKFLY had a significantly positive association with HLA B*3502,B*3503,B*5301; it was recognized by 20/37 B*3502,B*3503,B*5301-positive subjects and 55/304 B*3502,B*3503,B*5301-negative subjects.

References

Displaying record number 53653

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location
Epitope	`KAVRLIKFLY`	Epitope Alignment
Species (MHC/HLA)	human(B*5801, B57)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ, Chromium-release assay
Keywords	responses in children, mother-to-infant transmission

Notes

Escape mutations in TW10 and other B57-restricted epitopes were shown to arise early in infants following perinatal infection. Some escape variants were likely to have been transmitted vertically, from HLA-B57/5801 positive HIV-1 infected mothers, while others arose during infancy in cases where the children inherited the B57/5801 allele paternally. In contrast to adults, the majority of children showed a robust response to the escape variants, suggesting that infants are able to mount functional immune responses and drive immune escape and that a developing immune system may exhibit greater plasticity in recognizing viral variants.
This epitope was recognized less frequently in children than in adults.

References

Feeney2005a Margaret E. Feeney, Yanhua Tang, Katja Pfafferott, Kathleen A. Roosevelt, Rika Draenert, Alicja Trocha, Xu G. Yu, Cori Verrill, Todd Allen, Corey Moore, Simon Mallal, Sandra Burchett, Kenneth McIntosh, Stephen I. Pelton, M. Anne St. John, Rohan Hazra, Paul Klenerman, Marcus Altfeld, Bruce D. Walker, and Philip J. R. Goulder. HIV-1 Viral Escape in Infancy Followed by Emergence of a Variant-Specific CTL Response. J. Immunol., 174(12):7524-7530, 15 Jun 2005. PubMed ID: 15944251. Show all entries for this paper.

Displaying record number 61569

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev
Epitope	`KAVRLIKFLY`	Epitope Alignment
Epitope Name	B57-KY10(rev)
Species (MHC/HLA)	human(B*57)
Immunogen	HIV-1 infection
Patient MHC/HLA	OP246: A01, A02, B51, B57, Cw06; AC-108: A02, B57, B61, Cw03, Cw06
Country	United States
Experimental methods	CD8 T-cell Elispot - IFNγ, Intracellular cytokine staining
Keywords	acute/early infection, protective allele

Notes

HLA-B*57-restricted CTL responses were relatively immunodominant in breadth and strength during acute early infection of HIV-1. 6/9 HLA-B*57 patients controlled viremia to <5000 copies/ml for up to 29 months post-infection.
Epitope B57-KY10(rev), KAVRLIKFLY, elicited CTL response in 2/9 acute early HIV-1-infected subjects; OP246 = 150 SFC/10⁶ PBMC, AC-108 = 390 SFC/10⁶ PBMC.

References

Altfeld2003a Marcus Altfeld, Marylyn M. Addo, Eric S. Rosenberg, Frederick M. Hecht, Paul K. Lee, Martin Vogel, Xu G. Yu, Rika Draenert, Mary N. Johnston, Daryld Strick, Todd M. Allen, Margaret E. Feeney, James O. Kahn, Rafick P. Sekaly, Jay A. Levy, Jürgen K. Rockstroh, Philip J. Goulder, and Bruce D. Walker. Influence of HLA-B57 on Clinical Presentation and Viral Control during Acute HIV-1 Infection. AIDS, 17(18):2581-2591, 5 Dec 2003. PubMed ID: 14685052. Show all entries for this paper.

Displaying record number 54386

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location
Epitope	`KAVRLIKFLY`	Epitope Alignment
Epitope Name	KY10
Species (MHC/HLA)	human(B*57)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	escape

Notes

Impact of CTL escape mutations in HLA-B57 positive elite supressors was examined. Escape mutations in B57-restricted Gag epitopes were present in all viruses derived from plasma but were lacking in proviruses, suggesting a strong selective pressure acting upon virus in plasma. IFN-gamma responses were detected to both wild-type epitopes and mutant plasma virus epitopes. In some individuals, CD8 IL-2 secretion, rather than IFN-gamma responses, showed better correlation with the plasma viral variants.
HLA-B*57-restricted optimal epitope KAVRLIKFLY was tested for immune response.

References

Bailey2006 Justin R. Bailey, Thomas M. Williams, Robert F. Siliciano, and Joel N. Blankson. Maintenance of Viral Suppression in HIV-1-Infected HLA-B*57+ Elite Suppressors Despite CTL Escape Mutations. J. Exp. Med., 203(5):1357-1369, 15 May 2006. PubMed ID: 16682496. Show all entries for this paper.

Displaying record number 54821

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev(14-23)
Epitope	`KAVRLIKFLY`	Epitope Alignment
Epitope Name	revKY10
Species (MHC/HLA)	human(B*57)
Immunogen	HIV-1 infection
Country	Kenya, United Kingdom
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	TCR usage, structure, characterizing CD8+ T cells

Notes

CD8+ T cell repertoire recognizing KAFSPEVIPMF [KF11] and variants and the structure of individual B*57-peptide complexes were studied.
In addition, immunodominancy of the previously mapped B*57 epitopes during chronic infection was assessed. KGFNPEVIPMF and ISPRTLNAW were immunodominant both in frequency and magnitude of recognition.

References

Gillespie2006 Geraldine M. A. Gillespie, Guillaume Stewart-Jones, Jaya Rengasamy, Tara Beattie, Job J. Bwayo, Francis A. Plummer, Rupert Kaul, Andrew J. McMichael, Philippa Easterbrook, Tao Dong, E. Yvonne Jones, and Sarah L. Rowland-Jones. Strong TCR Conservation and Altered T Cell Cross-Reactivity Characterize a B*57-Restricted Immune Response in HIV-1 Infection. J. Immunol., 177(6):3893-3902, 15 Sep 2006. PubMed ID: 16951352. Show all entries for this paper.

Displaying record number 58504

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev(14-23)
Epitope	`KAVRLIKFLY`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B*57)
Immunogen	HIV-1 infection
Country	Canada
Experimental methods	Other
Keywords	characterizing CD8+ T cells, elite controllers

Notes

Dual color EliSpot testing for IL-2 and IFN-γ was used to determine whether CTL restricted by MHC Class I alleles associated with slow progression to disease, viz. B*57 and B*27, had a more poly-functional profile than other CD8+ cells in a treatment-naive cohort from Montreal. B*57/B*27-restricted CTL producing IL-2 or IFN-γ or IL-2/IFN-γ, were similar in both slow progressors (SP) and progressors. Other non-protective MHC-I-restricted CTL producing both IL-2/IFN-γ, were greater in number in SP than progressors.
Within SP, peptides restricted by both protective and non-protective MHC-I alleles elicited CTL with the same functional profile. For progressors, peptides and epitopes restricted by protective B*57/B*27 alleles stimulated a higher proportion of dual-(IL-2/IFN-γ)secreting CTL.
HLA-B*57-restricted Rev optimal epitope KAVRLIKFLY was tested in a dual color EliSpot and was found to elicit CTL that could produce IL-2 and/or IFN-γ.

References

Peretz2011 Yoav Peretz, Olivia Marra, Réjean Thomas, Danielle Legault, Pierre Côté, Mohamed-Rachid Boulassel, Danielle Rouleau, Jean-Pierre Routy, Rafick-Pierre Sékaly, Christos M Tsoukas, Cécile Tremblay, and Nicole F. Bernard. Relative Contribution of HIV-Specific Functional Lymphocyte Subsets Restricted by Protective and Non-Protective HLA Alleles. Viral Immunol, 24(3):189-198, Jun 2011. PubMed ID: 21668360. Show all entries for this paper.

Displaying record number 59145

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev
Epitope	`KAVRLIKFLY`	Epitope Alignment
Epitope Name	KY10
Subtype	B
Species (MHC/HLA)	human(B*57)
Immunogen	HIV-1 infection
Country	Germany
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	elite controllers

Notes

In a follow-up on the anonymous 1999 Berlin patient (not Timothy Brown of 2008), viral replication suppression was seen after 15 years of absence of ART. Half the HIV-specific CTL responses in this patient were restricted by HLA-B*57, with the most immunodominant being against Nef HW9, HTQGYFPDW.
Patient autologous sequence of B*57-restricted Rev KY10, KAVRLIKFLY, elicited a CTL response of ˜500 sfu/10<sup>6</sup> PBMC when tested by EliSpot.

References

Jessen2014 Heiko Jessen, Todd M. Allen, and Hendrik Streeck. How a Single Patient Influenced HIV Research — 15-Year Follow-Up. N. Engl. J. Med., 370(7):682-683, 13 Feb 2014. PubMed ID: 24521131. Show all entries for this paper.

Displaying record number 59892

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev(14-23)
Epitope	`KAVRLIKFLY`	Epitope Alignment
Epitope Name	KY10
Species (MHC/HLA)	human(B*57)
Immunogen	HIV-1 infection
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, optimal epitope

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.
KAVRLIKFLY had a significantly positive association with HLA B*57; it was recognized by 26/96 B*57-positive subjects and 18/188 B*57-negative subjects.

References

Displaying record number 1227

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev(14-23 subtype B)
Epitope	`KAVRLIKFLY`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B*5701)
Immunogen
Experimental methods
Keywords	optimal epitope

Notes

C. Brander notes this is a B*5701 epitope.

References

Addo2001 Marylyn M. Addo, Marcus Altfeld, Eric S. Rosenberg, Robert L. Eldridge, Mary N. Philips, Kathleen Habeeb, Ashok Khatri, Christian Brander, Gregory K. Robbins, Gail P. Mazzara, Philip J. R. Goulder, and Bruce D. Walker. The HIV-1 Regulatory Proteins Tat and Rev are Freqently Targeted by cytotoxic T Lymphocytes (CTL) Derived from HIV Infected Individuals. Proc. Natl. Acad. Sci. U.S.A., 98(4):1781-1786, 13 Feb 2001. PubMed ID: 11172028. Show all entries for this paper.

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 1203

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location	Rev(14-23 subtype B)
Epitope	`KAVRLIKFLY`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B*5801)
Immunogen
Experimental methods
Keywords	optimal epitope

Notes

C. Brander notes this is a B*5801 epitope.

References

Displaying record number 54138

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location
Epitope	`KAVRLIKFLY`	Epitope Alignment
Species (MHC/HLA)	human(B*63)
Immunogen
Experimental methods
Keywords	optimal epitope

Notes

C. Brander notes that this is an B*63 epitope.

References

Displaying record number 52050

HXB2 Location	Rev(14-23) DNA(6009..6038)	Rev Epitope Map
Author Location
Epitope	`KAVRLIKFLY`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human
Immunogen	HIV-1 infection
Experimental methods
Keywords	epitope processing, escape

Notes

Epitopes that have been described in the literature and included in this database tend to cluster in conserved regions and be absent or rarely found in highly variable regions in Nef, Env, and p17.
While the uneven distribution of epitopes may be in part due to a limited cross-recognition of specific responses because of differences between peptides used to probe the immune response and autologous strains, regions with a paucity of defined epitopes also had higher frequencies of amino acids that tend to not be found in C-terminal positions of epitopes, and had lower cleavage prediction scores for epitope processing. This suggests that in the regions of the virus where variation is best tolerated, traces of immune escape have left an imprint on the viral population. Epitopes also were concentrated in alpha-helix and turn regions in the proteins.
In the more conserved p24, and Pol proteins RT and Protease, epitopes are more evenly distributed.
What was learned from proteins where many epitopes have been defined (Gag, Pol, Env and Nef) was used to develop an algorithm to predict where epitopes would be localized in Rev, Tat, Vif, and Vpr. Predictions were made blinded, and then compared to the first 15 epitopes defined in these proteins; the epitopes were concentrated in the predicted regions.

References

Yusim2002 Karina Yusim, Can Kesmir, Brian Gaschen, Marylyn M. Addo, Marcus Altfeld, S\oren Brunak, Alexandre Chigaev, Vincent Detours, and Bette T. Korber. Clustering Patterns of Cytotoxic T-Lymphocyte Epitopes in Human Immunodeficiency Virus Type 1 (HIV-1) Proteins Reveal Imprints of Immune Evasion on HIV-1 Global Variation. J. Virol., 76(17):8757-8768, Sep 2002. PubMed ID: 12163596. Show all entries for this paper.