Search CTL/CD8+ T-Cell Epitope Database

Found 7 matching records:

Displaying record number 59735

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HXB2 Location	Pol(488-496) RT(333-341) DNA(3546..3572)	Pol Epitope Map
Author Location	Pol(488-496)
Epitope	`GQGQWTYQI`	Epitope Alignment
Epitope Name	GI9
Species (MHC/HLA)	human(B*13)
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.
GQGQWTYQI had a significantly positive association with HLA B*13; it was recognized by 7/15 B*13-positive subjects and 2/326 B*13-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 54587

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HXB2 Location	Pol(488-496) RT(333-341) DNA(3546..3572)	Pol Epitope Map
Author Location	Pol(488-496)
Epitope	`GQGQWTYQI`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B*13)
Immunogen	HIV-1 infection
Patient MHC/HLA	A03:01, A30:01, B13:01, B14:02, C06:02, C08:02
Country	South Africa
Experimental methods	CD8 T-cell Elispot - IFNγ, Intracellular cytokine staining
Keywords	epitope processing, escape, mutation acquisition, viral fitness and reversion, HLA associated polymorphism

Notes

To determine whether HLA-B*13-restricted CTL responses could partially explain low viremic loads in patients, a cohort of chronic C-clade infected subjects was studied. 6 novel B*13-restricted CTL epitopes were defined from both C- and B-clade viruses, 3 of which were within Gag. B*13-restricted CTL responses correlated with lower viremia, with most immunity targeted against Gag epitopes (p15, p17, p24). Gag epitope escape variants may exact a high viral fitness cost, mutations being seen within and around the optimal epitope.

References

Honeyborne2007 Isobella Honeyborne, Andrew Prendergast, Florencia Pereyra, Alasdair Leslie, Hayley Crawford, Rebecca Payne, Shabashini Reddy, Karen Bishop, Eshia Moodley, Kriebashnie Nair, Mary van der Stok, Noel McCarthy, Christine M. Rousseau, Marylyn Addo, James I. Mullins, Christian Brander, Photini Kiepiela, Bruce D. Walker, and Philip J. R. Goulder. Control of Human Immunodeficiency Virus Type 1 Is Associated with HLA-B*13 and Targeting of Multiple Gag-Specific CD8+ T-Cell Epitopes. J. Virol., 81(7):3667-3672, Apr 2007. PubMed ID: 17251285. Show all entries for this paper.

Displaying record number 54094

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HXB2 Location	Pol(488-496) RT(333-341) DNA(3546..3572)	Pol Epitope Map
Author Location
Epitope	`GQGQWTYQI`	Epitope Alignment
Epitope Name	GI9
Species (MHC/HLA)	human(B*13)
Immunogen
Experimental methods
Keywords	optimal epitope, A-list

Notes

C. Brander notes this is a B*13 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 62543

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HXB2 Location	Pol(488-496) RT(333-341) DNA(3546..3572)	Pol Epitope Map
Author Location	Pol(488-496)
Epitope	`GQGQWTYQI`	Epitope Alignment
Epitope Name	GI9
Subtype	B
Species (MHC/HLA)	human(B*13)
Immunogen	HIV-1 infection
Patient MHC/HLA	S00024: A02, B13, B15, C06, C07; S00039: A31, A32, B13, B35, C04, C*06
Country	United States
Experimental methods	CD8 T-cell Elispot - IFNγ, Other
Keywords	dynamics, chronic infection

Notes

This report analyzed 29 CTL responses against 23 HIV-1 epitopes in 9 untreated chronically infected "controllers" and identified inverse correlations between epitope variability and CTL clonal stability over time and between epitope variability and CTL clonal breadth.
Over 76 weeks, the RQANFLGKI-specific CTL clonal response in individual S00024 demonstrated a 0.17 Sorenson similarity index and a mean breadth of 1.5.
Over 43 weeks, the RQANFLGKI-specific CTL clonal response in individual S00039 demonstrated a 0.00 Sorenson similarity index and a mean breadth of 1.0.
Based on all HIV-1 subtype B sequences in LANL HIV Sequence Database at time of analysis, RQANFLGKI had a Simpson diversity index of 0.74.

References

Balamurugan2017 Arumugam Balamurugan, Deon Claiborne, Hwee L. Ng, and Otto O. Yang. HIV-1 Epitope Variability Is Associated with T Cell Receptor Repertoire Instability and Breadth. J. Virol., 91(16), 15 Aug 2017. PubMed ID: 28592539. Show all entries for this paper.

Displaying record number 55990

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HXB2 Location	Pol(488-496) RT(333-341) DNA(3546..3572)	Pol Epitope Map
Author Location	RT
Epitope	`GQGQWTYQI`	Epitope Alignment
Epitope Name	GI9(RT)
Subtype	B
Species (MHC/HLA)	human(B13)
Immunogen	HIV-1 infection
Country	China
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	chronic infection

Notes

49 ART-naive chronically HIV-1 infected Chinese subjects' CTLs were tested with 413 OLPs in IFN-γ assays, determining optimal epitopes specific for Chinese Clade B HIV-1 sequences.
An inverse correlation was found between CTL response and viral load.
Targeted peptides have lower entropy than peptides that are not CTL targeted. This correlation is independent of HLA-restriction.
Previously described HLA-B13-restricted epitope GQGQWTYQI elicited an immune response in Chinese HIV-1 positive subjects as part of peptide GQGQWTYQIYQEPFKNLK.
>2 of the 29 HLA-B13 carriers responded to GQGQWTYQI-containing peptide with average magnitude of CTL response of 160 SFC/million PBMC (author communication and Fig.1).

References

Zhai2008 Song Zhai, Yan Zhuang, Yang Song, Shu Li, Dedong Huang, Wenzhen Kang, Xinhong Li, Qi Liao, Yanhou Liu, Zhongfang Zhao, Yichen Lu, and Yongtao Sun. HIV-1-Specific Cytotoxic T Lymphocyte (CTL) Responses Against Immunodominant Optimal Epitopes Slow the Progression of AIDS in China. Curr. HIV Res., 6(4):335-350, Jun 2008. PubMed ID: 18691032. Show all entries for this paper.

Displaying record number 61227

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HXB2 Location	Pol(488-496) RT(333-341) DNA(3546..3572)	Pol Epitope Map
Author Location	RT(333-341)
Epitope	`GQGQWTYQI`	Epitope Alignment
		Show epitope variants
Epitope Name	GI9
Subtype	B
Species (MHC/HLA)	human(B*13:02)
Immunogen	HIV-1 infection
Experimental methods	Relative replication capacity assay
Keywords	class I down-regulation by Nef, escape, novel epitope

Notes

Protective HLA-B*13 was studied by following the 10 most common polymorphisms associated with it. Conserved Gag and Nef B*13-restricted epitopes were shown to have fitness costs when mutated and this makes B*13 a highly protective HLA. In addition, escape-substitutions E24Q and Q107R together, but not separately, impair the ability of Nef to downregulate the MHCI molecule. A novel B*13-restricted Gag p24 epitope GQMVHQAI was identified. Also, Gag-K436R is a compensatory mutation to escape GagI437L.
Epitope GI9, GQGQWTYQI, contains the B*13-associated polymorphism Q334N.

References

Shahid2015 Aniqa Shahid, Alex Olvera, Gursev Anmole, Xiaomei T. Kuang, Laura A. Cotton, Montserrat Plana, Christian Brander, Mark A. Brockman, and Zabrina L. Brumme. Consequences of HLA-B*13-Associated Escape Mutations on HIV-1 Replication and Nef Function. J. Virol., 89(22):11557-11571, Nov 2015. PubMed ID: 26355081. Show all entries for this paper.

Displaying record number 62890

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HXB2 Location	Pol(488-496) RT(333-341)	Pol Epitope Map
Author Location	Pol
Epitope	`GQGQWTYQI`	Epitope Alignment
		Show epitope variants
Species (MHC/HLA)	human
Immunogen	HIV-1 infection, vaccine
Patient MHC/HLA	PubID 5050122: A30, B13:02; PubID 5051958: A30, B13:02; PubID 5051993: B*13:02
Experimental methods	Other
Keywords	vaccine-induced immune responses, variant cross-reactivity

Vaccine Details

Vaccine type	DNA, polyepitope, adenovirus type 5 (Ad5), recombinant protein
Vaccine component	Env, Gag, Nef, Pol

Notes

Cross-reactive CTL responses elicited by preventative HIV-1 vaccine efficacy trials (MRKAd5 & DNA/rAd5) and acute HIV-1 infection were similar in magnitude, frequency & polyfunctionality but were lower in magnitude and antigen sensitivity when compared to vaccine- or transmitted founder virus (TFV)-specific responses. Analysis of breakthrough infection sequences in vaccine recipients suggested CTL-mediated vaccine-induced sieving at Gag84 for MRKAd5 recipients and in 3 epitopes for DNA/rAd5 recipients. In both vaccinated and infected subjects, greater reductions of cross-reactive CTL responses to variants of HLA-I-associated epitopes, vs. non-HLA-I-associated epitopes, were observed.
GQGQWTYQI, known to be B*13:02-restricted, was 1/3 Pol epitopes with a vaccine-induced sieve effect in DNA/rAd5 vaccine recipients. Variant GlGQWsYQI was observed in vaccine subject PubID 5051993 while GQGQWTYQI was observed in 2 placebo subjects (PubIDs 5050122 & 5051958).

References

Boppana2020 Sushma Boppana, Andrew Fiore-Gartland, Anju Bansal, and Paul Goepfert. Cross-Reactive CD8 T-Cell Responses Elicited by Adenovirus Type 5-Based HIV-1 Vaccines Contributed to Early Viral Evolution in Vaccine Recipients Who Became Infected. J Virol, 94(2):JVI01632-19 doi, Jan 2020. PubMed ID: 31645444 Show all entries for this paper.