Search CTL/CD8+ T-Cell Epitope Database

Found 16 matching records:

Displaying record number 59951

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef(105-115)
Epitope	`KRQEILDLWVY`	Epitope Alignment
Epitope Name	KY11
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.
KRQEILDLWVY had a significantly positive association with HLA B*13; it was recognized by 6/11 B*13-positive subjects and 29/190 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 59954

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef(105-115)
Epitope	`KRQEILDLWVY`	Epitope Alignment
Epitope Name	KY11
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, 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.
KRQEILDLWVY had a significantly positive association with HLA B*18; it was recognized by 5/12 B*18-positive subjects and 24/178 B*18-negative subjects.

References

Displaying record number 56605

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef(105-115)
Epitope	`KRQEILDLWVY`	Epitope Alignment
Epitope Name	KY11
Subtype	C
Species (MHC/HLA)	human(B18, C*07:01)
Immunogen	HIV-1 infection
Country	South Africa, Zambia
Experimental methods
Keywords	viral fitness and reversion, HLA associated polymorphism

Notes

A cohort of clade C-infected Zambian HIV-1 transmission pairs was studied. Accumulation in the donor of HLA-B restricted mutations in Gag, but not in Nef resulted in a reduced viral load in a recipient upon transmission.
20 mutations in Gag and 11 mutations in Nef, within or flanking CTL epitopes, were considered based on data from a Clade C South African cohort. HLA-Cw*0701-restricted KRQEILDLWVY (KY11) was associated with a polymorphism at (K)RQEILDLWVY, and HLA-B18-restricted KY11 was associated with a polymorphism at KRQ(E)ILDLWVY.

References

Goepfert2008 Paul A. Goepfert, Wendy Lumm, Paul Farmer, Philippa Matthews, Andrew Prendergast, Jonathan M. Carlson, Cynthia A. Derdeyn, Jianming Tang, Richard A. Kaslow, Anju Bansal, Karina Yusim, David Heckerman, Joseph Mulenga, Susan Allen, Philip J. R. Goulder, and Eric Hunter. Transmission of HIV-1 Gag Immune Escape Mutations Is Associated with Reduced Viral Load in Linked Recipients. J. Exp. Med., 205(5):1009-1017, 12 May 2008. PubMed ID: 18426987. Show all entries for this paper.

Displaying record number 56484

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef
Epitope	`KRQEILDLWVY`	Epitope Alignment
Subtype	C
Species (MHC/HLA)	human(B18:01, B44:03)
Immunogen	HIV-1 infection
Country	South Africa
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	viral fitness and reversion, HLA associated polymorphism

Notes

HLA-associated polymorphisms were studied in a cohort of 710 chronic subtype C patients from South Africa. 84 HLA Class I-associated polymorphisms were identified, 73% of them with HLA-B. The viral set points associated with HLA allele correlated with the number of reversions associated with that allele, (HLA-B in Gag, HLA-C in Pol).
KRQEILDLWVY is a previously described HLA-B*4403 and -B*18(01)-restricted epitope (part of Nef reacting peptide EGLIYSKKRQeILDLWVYHTQ) that contains a B*4403 and B*18(01)-associated reversion at residue e (KRQeILDLWVY).

References

Matthews2008 Philippa C. Matthews, Andrew Prendergast, Alasdair Leslie, Hayley Crawford, Rebecca Payne, Christine Rousseau, Morgane Rolland, Isobella Honeyborne, Jonathan Carlson, Carl Kadie, Christian Brander, Karen Bishop, Nonkululeko Mlotshwa, James I. Mullins, Hoosen Coovadia, Thumbi Ndung'u, Bruce D. Walker, David Heckerman, and Philip J. R. Goulder. Central Role of Reverting Mutations in HLA Associations with Human Immunodeficiency Virus Set Point. J. Virol., 82(17):8548-8559, Sep 2008. PubMed ID: 18596105. Show all entries for this paper.

Displaying record number 59948

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef(105-115)
Epitope	`KRQEILDLWVY`	Epitope Alignment
Epitope Name	KY11
Species (MHC/HLA)	human(B*27)
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.
KRQEILDLWVY had a significantly positive association with HLA B*27; it was recognized by 23/38 B*27-positive subjects and 72/303 B*27-negative subjects.

References

Displaying record number 59950

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef(105-115)
Epitope	`KRQEILDLWVY`	Epitope Alignment
Epitope Name	KY11
Species (MHC/HLA)	human(B*44)
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.
KRQEILDLWVY had a significantly positive association with HLA B*44; it was recognized by 6/27 B*44-positive subjects and 3/95 B*44-negative subjects.

References

Displaying record number 59952

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef(105-115)
Epitope	`KRQEILDLWVY`	Epitope Alignment
Epitope Name	KY11
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, 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.
KRQEILDLWVY had a significantly positive association with HLA B*57; it was recognized by 12/51 B*57-positive subjects and 9/122 B*57-negative subjects.

References

Displaying record number 59953

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef(105-115)
Epitope	`KRQEILDLWVY`	Epitope Alignment
Epitope Name	KY11
Species (MHC/HLA)	human(B*58:01)
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.
KRQEILDLWVY had a significantly positive association with HLA B*5801; it was recognized by 3/5 B*5801-positive subjects and 21/173 B*5801-negative subjects.

References

Displaying record number 52609

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef(105-115)
Epitope	`KRQEILDLWVY`	Epitope Alignment
Species (MHC/HLA)	human(C*07)
Immunogen
Experimental methods
Keywords	optimal epitope, A-list

Notes

C. Brander notes this as a Cw*07 epitope. Variant rRQdILDLWiY also noted.

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 57687

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location
Epitope	`KRQEILDLWVY`	Epitope Alignment
Epitope Name	KY11
Subtype	C
Species (MHC/HLA)	human(C*07)
Immunogen	HIV-1 infection
Country	South Africa
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	immunodominance, characterizing CD8+ T cells

Notes

The antiviral effectiveness of HLA-B*57/58 and HLA-Cw*07 restricted CD8+ T-cell responses did not differ significantly in polyfunctionality, suggesting that the loss of polyfunctionality during disease progression is independent of the restricting HLA allele. There were no differences in the polyfunctionality of T cells specific to wild type versus mutated epitopes, suggesting that sequence variation does not significantly impact CD8 T-cell polyfunctionality in chronic infection.
9/9 HLA-B*57/58- and HLA-Cw*07-positive subjects had a positive Elispot response to this epitope.

References

Mkhwanazi2010 Nompumelelo Mkhwanazi, Christina F. Thobakgale, Mary van der Stok, Shabashini Reddy, Zenele Mncube, Fundisiwe Chonco, Bruce D. Walker, Marcus Altfeld, Philip J. R. Goulder, and Thumbi Ndung'u. Immunodominant HIV-1-Specific HLA-B- and HLA-C-Restricted CD8+ T Cells Do Not Differ in Polyfunctionality. Virology, 405(2):483-491, 30 Sep 2010. PubMed ID: 20638093. Show all entries for this paper.

Displaying record number 59949

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef(105-115)
Epitope	`KRQEILDLWVY`	Epitope Alignment
Epitope Name	KY11
Species (MHC/HLA)	human(C*07)
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.
KRQEILDLWVY had a significantly positive association with HLA C*07; it was recognized by 37/102 C*07-positive subjects and 35/201 C*07-negative subjects.

References

Displaying record number 55057

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef
Epitope	`KRQEILDLWVY`	Epitope Alignment
Species (MHC/HLA)	human(C*07:01)
Immunogen	HIV-1 infection
Country	Kenya
Experimental methods	CD8 T-cell Elispot - IFNγ, Chromium-release assay, Flow cytometric T-cell cytokine assay
Keywords	subtype comparisons, HLA cross-presentation, variant cross-reactivity

Notes

The pattern of immunodominance and epitope clustering within Gag and Nef proteins in subtype A infected individuals was similar to that seen in subtype B and C infections. An immunodominant HLA-C restricted epitope, YVDRFFKTL (YL9 from Gag protein) was observed and restricted to Cw0304.
The sequence kKRQEILDLWVYhtq is associated with HLA-Cw*0701 and contains the epitope KRQEILDLWVY.

References

Currier2006 Jeffrey R. Currier, Unchalee Visawapoka, Sodsai Tovanabutra, Carl J. Mason, Deborah L. Birx, Francine E. McCutchan, and Josephine H. Cox. CTL Epitope Distribution Patterns in the Gag and Nef Proteins of HIV-1 from Subtype A Infected Subjects in Kenya: Use of Multiple Peptide Sets Increases the Detectable Breadth of the CTL Response. BMC Immunol, 7:8, 2006. PubMed ID: 16620386. Show all entries for this paper.

Displaying record number 61185

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef(105-115)
Epitope	`KRQEILDLWVY`	Epitope Alignment
		Show epitope variants
Epitope Name	KEY11
Subtype	B
Species (MHC/HLA)	human(C*07:01)
Immunogen	HIV-1 infection
Country	United States
Experimental methods	CD8 T-cell Elispot - IFNγ, Intracellular cytokine staining, Other
Keywords	acute/early infection, variant cross-reactivity

Notes

An 11-member cohort of acutely infected patients was studied to find that CTL cross-recognition of variant epitopes during acute infection is absent or poor as opposed to during chronic HIV-infection.
Nef epitope KRQEILDLWVY, KEY11_105-115,-specific T cells were less cytotoxic to variants than autologous KEY11 in acute infection. No variants tested cross-reacted with T cells specific to autologous KEY11.

References

Du2016 Victor Y. Du, Anju Bansal, Jonathan Carlson, Jesus F. Salazar-Gonzalez, Maria G. Salazar, Kristin Ladell, Stephanie Gras, Tracy M. Josephs, Sonya L. Heath, David A. Price, Jamie Rossjohn, Eric Hunter, and Paul A. Goepfert. HIV-1-Specific CD8 T Cells Exhibit Limited Cross-Reactivity during Acute Infection. J. Immunol., 196(8):3276-3286, 15 Apr 2016. PubMed ID: 26983786. Show all entries for this paper.

Displaying record number 53313

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	( C consensus)
Epitope	`KRQEILDLWVY`	Epitope Alignment
Subtype	C
Species (MHC/HLA)	human(C07:01, C07:02)
Immunogen	HIV-1 infection
Country	South Africa
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	HLA cross-presentation, characterizing CD8+ T cells

Notes

HLA class I restricted CD8+ T-cell responses against HIV-1 were analyzed in African patients. Significantly more responses were shown to be HLA-B restricted. Viral load, CD4 count, and thus rate of disease progression were also associated with HLA-B alleles. In addition, the selection pressure imposed on HIV-1 by HLA-B alleles was shown to be substantially greater than by other alleles.
This epitope was suggested to be the epitope within a longer reactive peptide based on correspondence with a known epitope in the HIV database. Also, a significantly higher frequency of people in the Durban cohort who reacted with the peptide had this HLA type.

References

Kiepiela2004 Photini Kiepiela, Alasdair J. Leslie, Isobella Honeyborne, Danni Ramduth, Christina Thobakgale, Senica Chetty, Prinisha Rathnavalu, Corey Moore, Katja J. Pfafferott, Louise Hilton, Peter Zimbwa, Sarah Moore, Todd Allen, Christian Brander, Marylyn M. Addo, Marcus Altfeld, Ian James, Simon Mallal, Michael Bunce, Linda D. Barber, James Szinger, Cheryl Day, Paul Klenerman, James Mullins, Bette Korber, Hoosen M. Coovadia, Bruce D. Walker, and Philip J. R. Goulder. Dominant Influence of HLA-B in Mediating the Potential Co-Evolution of HIV and HLA. Nature, 432(7018):769-775, 9 Dec 2004. LA-UR 04-5920. PubMed ID: 15592417. Show all entries for this paper.

Displaying record number 57841

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef
Epitope	`KRQEILDLWVY`	Epitope Alignment
Epitope Name	KY11
Subtype	B
Species (MHC/HLA)	human(Cw7)
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.
KRQEILDLWVY 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 56418

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HXB2 Location	Nef(105-115) DNA(9109..9141)	Nef Epitope Map
Author Location	Nef(105-115)
Epitope	`KRQEILDLWVY`	Epitope Alignment
Epitope Name	KY11
Subtype	B
Species (MHC/HLA)	human(Cw7)
Immunogen	HIV-1 infection
Country	Australia, Canada, Germany, United States
Experimental methods
Keywords	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.
HLA-Cw*07-associated substitutions within optimally defined epitope KRQEILDLWVY are at positions K1 and V10, kRQEILDLWvY.

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.