Search CTL/CD8+ T-Cell Epitope Database

Found 12 matching records:

Displaying record number 62230

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location	Vpr(48-57)
Epitope	`ETYGDTWTGV`	Epitope Alignment
		Show epitope variants
Epitope Name	Vpr-EV10
Subtype	C
Species (MHC/HLA)	human(A*68)
Immunogen	HIV-1 infection
Patient MHC/HLA	517-C: A30:02, A68:02, B15:10, B42:01, C03:04, C17:01; 517-M: A30:02, A30:04, B42:01, B58:02, C06:02, C17:01
Country	South Africa
Experimental methods	CD8 T-cell Elispot - IFNγ, Other
Keywords	dynamics, responses in children, mother-to-infant transmission, rate of progression, escape

Notes

11 perinatally infected pediatric slow progressors (PSPs) were followed longitudinally for a decade from birth to examine CTL responses to circulating and autologous HIV. It was found by ultra-deep sequencing that though, like adults, children develop variants early in infection; unlike adults, pediatric anti-variant CTL are generated.
EliSpot was used to determine that non-Gag/Pol-specific responses (i.e. Env or Nef responses) are higher within the first weeks of infection for pediatric viremic non-controllers (VNCs) just as seen previously in adult VNCs and vice versa in pediatric VCs (PSPs). Therefore non-Gag/Pol-specific CTL responses are confirmed to be linked to higher VL and progression to disease.
In pediatric VNC, 517-C, A*68-restricted EV10 was transmitted with mutations not documented as escapes from the A*68^- mother (Patient Rec. #4459) to the A*68⁺ child. Variants were seen to arise over the time course, but they are not identified escape variants.

References

Leitman2017 Ellen M. Leitman, Christina F. Thobakgale, Emily Adland, M. Azim Ansari, Jayna Raghwani, Andrew J. Prendergast, Gareth Tudor-Williams, Photini Kiepiela, Joris Hemelaar, Jacqui Brener, Ming-Han Tsai, Masahiko Mori, Lynn Riddell, Graz Luzzi, Pieter Jooste, Thumbi Ndung'u, Bruce D. Walker, Oliver G. Pybus, Paul Kellam, Vivek Naranbhai, Philippa C. Matthews, Astrid Gall, and Philip J. R. Goulder. Role of HIV-Specific CD8+ T Cells in Pediatric HIV Cure Strategies after Widespread Early Viral Escape. J. Exp. Med., 214(11):3239-3261, 6 Nov 2017. PubMed ID: 28983013. Show all entries for this paper.

Displaying record number 54120

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location	Vpr(48-57)
Epitope	`ETYGDTWTGV`	Epitope Alignment
Species (MHC/HLA)	human(A*68:02)
Immunogen
Experimental methods
Keywords	optimal epitope, A-list

Notes

C. Brander notes that this is an A*6802 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 54187

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location	Vpr(48-57)
Epitope	`ETYGDTWTGV`	Epitope Alignment
Subtype	C
Species (MHC/HLA)	human(A*68:02)
Immunogen	HIV-1 infection
Experimental methods	Other
Keywords	HLA associated polymorphism

Notes

Publicly available HIV-1 subtype C sequences from South Africa and Botswana were analyzed, and 94 HLA-associated amino acid polymorphisms were found. Many polymorphisms were associated with multiple HLA allele classes. 12% associations were negative: association of virus expression of the consensus amino acid with a specific HLA allele. HLA-B alleles accounted for 50% of associations. 19 HLA-associated polymorphisms were embedded in previously defined epitopes.
ETYGDTWTGV was a previously defined A*6802 presented epitope that encompassed a supertype A2 associated polymorphism, eTYGDTWTGV, in the first position of that epitope.
The epitope eTYGDTWTGV is partially embedded in a CTL immunodominant region.

References

Boutwell2007 Christian L. Boutwell and M. Essex. Identification of HLA Class I-Associated Amino Acid Polymorphisms in the HIV-1C Proteome. AIDS Res. Hum. Retroviruses, 23(1):165-174, Jan 2007. PubMed ID: 17263647. Show all entries for this paper.

Displaying record number 56256

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location
Epitope	`ETYGDTWTGV`	Epitope Alignment
Subtype	C
Species (MHC/HLA)	human(A*68:02)
Immunogen	HIV-1 infection
Patient MHC/HLA	A68:02, B15:10, C*03:04
Country	South Africa
Experimental methods	CD8 T-cell Elispot - IFNγ, Chromium-release assay
Keywords	rate of progression

Notes

47 HIV-1 subtype C infected patients were followed longitudinally to determine whether there was a relation between magnitude and breadth of CTL responses in primary, acute infection (measured by IFN-gamma ELISpot) and disease progression (measured as viral load at 12 months). CTL responses to Nef were dominant (targeting 6 epitopic regions), followed by responses to Gag, Pol, Rev, Vpr, Env, Vpu, Vif and finally Tat.
Known epitope ETYGDTWTGV is HLA-A*6802-restricted. Response to a peptide containing this epitope was detected in a rapid progressor 12 weeks post-infection.

References

Gray2009 Clive M. Gray, Mandla Mlotshwa, Catherine Riou, Tiyani Mathebula, Debra de Assis Rosa, Tumelo Mashishi, Cathal Seoighe, Nobubelo Ngandu, Francois van Loggerenberg, Lynn Morris, Koleka Mlisana, Carolyn Williamson, Salim Abdool Karim, and CAPRISA 002 Acute Infection Study Team. Human Immunodeficiency Virus-Specific gamma Interferon Enzyme-Linked Immunospot Assay Responses Targeting Specific Regions of the Proteome during Primary Subtype C Infection Are Poor Predictors of the Course of Viremia and Set Point. J. Virol., 83(1):470-478, Jan 2009. PubMed ID: 18945774. Show all entries for this paper.

Displaying record number 59035

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location	Vpr(48-57)
Epitope	`ETYGDTWTGV`	Epitope Alignment
		Show epitope variants
Epitope Name	Vpr-EV10
Subtype	C
Species (MHC/HLA)	human(A*68:02)
Immunogen	HIV-1 infection
Country	United Kingdom
Experimental methods	CD8 T-cell Elispot - IFNγ, HLA binding, Intracellular cytokine staining, Tetramer binding
Keywords	optimal epitope, novel epitope

Notes

An ART-naive cohort was used to define CTL responses to HLA-A*6802, a highly prevalent allele in sub-Saharan Africa that contributes greatly to the HIV-1 clade C immune response. 4 novel epitopes were experimentally defined as restricted by HLA-A*6802, mostly from Pol and Vpr. 4 more overlapping peptides (OLPs) were also identified as containing A*6802-restricted epitopes.
Vpr-EV10, ETYGDTWTGV, is a novel, optimal epitope with very good binding to HLA-A*6802 that was found within OLP283, SLGQYIYETYGDTWTGV. Optimization of epitope sequence was by peptide titration, HLA binding and cytokine staining. 53% of A*6802+ subjects carried the E48D polymorphism at P1 in EV10 as compared to 16% of A*6802- subjects. Viral set point for responders to EV10 was lower than non-responders, suggesting that CTL response to EV10 lacks efficacy with respect to immune control.

References

Kloverpris2013c Henrik N. Kløverpris, Anette Stryhn, Mikkel Harndahl, Jonathan M. Carlson, Alasdair J. Leslie, Fabian Chen, Lynn Riddell, Joseph Mulenga, Bruce D. Walker, Thumbi Ndung'u, Søren Buus, and Philip Goulder. HLA-A*68:02-Restricted Gag-Specific Cytotoxic T Lymphocyte Responses Can Drive Selection Pressure on HIV but Are Subdominant and Ineffective. AIDS, 27(11):1717-1723, 17 Jul 2013. PubMed ID: 23525031. Show all entries for this paper.

Displaying record number 53954

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location	( C consensus)
Epitope	`ETYGDTWTGV`	Epitope Alignment
Subtype	C
Species (MHC/HLA)	human(A*68:02)
Immunogen	HIV-1 infection
Country	South Africa
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	rate of progression, optimal epitope

Notes

A comprehensive analysis of 160 class I T cell responses in 578 individuals from KwaZulu-Natal, South Africa was performed. Gag-specific responses were associated with lowering viremia, while Env, accessory and regulatory protein-specific responses were associated with higher viremia.
Mutational patterns in the W7 residue of ETYGDTWTGV are associated with the presence of the HLA presenting molecule in the host.

References

Kiepiela2007 Photini Kiepiela, Kholiswa Ngumbela, Christina Thobakgale, Dhanwanthie Ramduth, Isobella Honeyborne, Eshia Moodley, Shabashini Reddy, Chantal de Pierres, Zenele Mncube, Nompumelelo Mkhwanazi, Karen Bishop, Mary van der Stok, Kriebashnie Nair, Nasreen Khan, Hayley Crawford, Rebecca Payne, Alasdair Leslie, Julia Prado, Andrew Prendergast, John Frater, Noel McCarthy, Christian Brander, Gerald H. Learn, David Nickle, Christine Rousseau, Hoosen Coovadia, James I. Mullins, David Heckerman, Bruce D. Walker, and Philip Goulder. CD8+ T-Cell Responses to Different HIV Proteins Have Discordant Associations with Viral Load. Nat. Med., 13(1):46-53, Jan 2007. PubMed ID: 17173051. Show all entries for this paper.

Displaying record number 59648

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location	Vpr(48-57)
Epitope	`ETYGDTWTGV`	Epitope Alignment
Epitope Name	EV10
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.
ETYGDTWTGV had a significantly positive association with HLA A*6802; it was recognized by 13/26 A*6802-positive subjects and 13/315 A*6802-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 61198

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location	Vpr(48-57)
Epitope	`ETYGDTWTGV`	Epitope Alignment
Epitope Name	EV10
Subtype	B
Species (MHC/HLA)	human(A*68:02)
Immunogen	HIV-1 infection
Country	Japan
Experimental methods	Other
Keywords	HLA associated polymorphism

Notes

Comprehensive analysis of Vpr, HIV-1 viral protein R, sequence polymorphism was performed and associated with disease outcome or host HLA genotype, using 444 treatment-naive chronically infected patients. Positions Thr-55, Ile-63 and Met-63, located at highly immunogenic Vpr regions, were HLA-genotype associated to HLAs A*3101, Cw*1502 and A*0206.
Epitope EV10, though frequently observed in chronic HIV infection, was not restricted by Vpr polymorphism-associated HLA. Novel CTL epitopes may exist in this immunodominant region.

References

Kamori2017 Doreen Kamori, Zafrul Hasan, Jun Ohashi, Ai Kawana-Tachikawa, Hiroyuki Gatanaga, Shinichi Oka, and Takamasa Ueno. Identification of Two Unique Naturally Occurring Vpr Sequence Polymorphisms Associated with Clinical Parameters in HIV-1 Chronic Infection. J. Med. Virol., 89(1):123-129, Jan 2017. PubMed ID: 27328918. Show all entries for this paper.

Displaying record number 59651

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location	Vpr(48-57)
Epitope	`ETYGDTWTGV`	Epitope Alignment
Epitope Name	EV10
Species (MHC/HLA)	human(A*69)
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.
ETYGDTWTGV had a significantly positive association with HLA A*69; it was recognized by 1/1 A*69-positive subjects and 4/277 A*69-negative subjects.

References

Displaying record number 59649

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location	Vpr(48-57)
Epitope	`ETYGDTWTGV`	Epitope Alignment
Epitope Name	EV10
Species (MHC/HLA)	human(B*39)
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.
ETYGDTWTGV had a significantly positive association with HLA B*39; it was recognized by 4/21 B*39-positive subjects and 5/278 B*39-negative subjects.

References

Displaying record number 59650

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location	Vpr(48-57)
Epitope	`ETYGDTWTGV`	Epitope Alignment
Epitope Name	EV10
Species (MHC/HLA)	human(C*14)
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.
ETYGDTWTGV had a significantly positive association with HLA C*14; it was recognized by 4/16 C*14-positive subjects and 9/299 C*14-negative subjects.

References

Displaying record number 55804

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HXB2 Location	Vpr(48-57) DNA(5700..5729)	Vpr Epitope Map
Author Location	Vpr(48-57)
Epitope	`ETYGDTWTGV`	Epitope Alignment
Species (MHC/HLA)	human
Immunogen	HIV-1 infection
Experimental methods
Keywords	computational epitope prediction, HLA associated polymorphism

Notes

976 Vpr sequences were studied from global HIV-1 isolates to comprehensively analyze amino acid polymorphisms. Since several polymorphic residues were part of CTL epitopes, HIV-1 immune evasion in Vpr is noted.
50 possible amino acid polymorphisms were defined in this previously published CTL epitope, ETYGDTWTGV.
Using half-time estimates of disassociation of the molecule containing the epitope from specific HLA Class I molecules, 12 additional CTL epitopes were predicted across Vpr (Table 17).

References

Srinivasan2008 Alagarsamy Srinivasan, Velpandi Ayyavoo, Sundarasamy Mahalingam, Aarthi Kannan, Anne Boyd, Debduti Datta, Vaniambadi S. Kalyanaraman, Anthony Cristillo, Ronald G. Collman, Nelly Morellet, Bassel E. Sawaya, and Ramachandran Murali. A Comprehensive Analysis of the Naturally Occurring Polymorphisms in HIV-1 Vpr: Potential Impact on CTL Epitopes. Virol. J., 5:99, 2008. PubMed ID: 18721481. Show all entries for this paper.