Search CTL/CD8+ T-Cell Epitope Database

Found 16 matching records:

Displaying record number 59927

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	Pol(418-426)
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	KIY9
Species (MHC/HLA)	human(A*24)
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.
KLNWASQIY had a significantly positive association with HLA A*24; it was recognized by 2/21 A*24-positive subjects and 1/152 A*24-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 59925

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	Pol(418-426)
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	KIY9
Species (MHC/HLA)	human(A*29)
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.
KLNWASQIY had a significantly positive association with HLA A*29; it was recognized by 4/22 A*29-positive subjects and 10/216 A*29-negative subjects.

References

Displaying record number 59922

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	Pol(418-426)
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	KIY9
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.
KLNWASQIY had a significantly positive association with HLA A*30; it was recognized by 16/53 A*30-positive subjects and 30/288 A*30-negative subjects.

References

Displaying record number 55947

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	RT
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	KY9(RT)
Subtype	B
Species (MHC/HLA)	human(A30)
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-A30-restricted epitope KLNWASQIY elicited an immune response in Chinese HIV-1 positive subjects as peptide NDIQKLVGKLNWASQIYA but not as peptide KLNWASQIYAGIKVKQL.
1 of the 15 HLA-A30 carriers responded to KLNWASQIY-containing peptide #201 with average magnitude of CTL response of 40 SFC/million PBMC. Although the second tested peptide #202 contains the exact sequence of a previously described HLA-A30 optimal epitope, KLNWASQIY, none of the 15 HLA-A30 carriers responded to it (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 52280

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	RT
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	A30-KY11(RT)
Subtype	B
Species (MHC/HLA)	human(A30)
Immunogen	HIV-1 infection
Patient MHC/HLA	A30, A32, B18, B27
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 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 D displayed the greatest response to B27-KK10 (p24), and also responded to A30-RY11(p17), A32-PW10(RT), A30-KY11(RT), A32-RW10(gp120), and B18-YY9(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 54272

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	RT
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	A30-KIY9(RT)
Species (MHC/HLA)	human(A30)
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 1196

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	RT(263-271 LAI)
Epitope	`KLNWASQIY`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(A*30:02)
Immunogen
Experimental methods
Keywords	optimal epitope, A-list

Notes

C. Brander notes this is an A*3002 epitope.

References

Goulder2001 P. J. Goulder, M. M. Addo, M. A. Altfeld, E. S. Rosenberg, Y. Tang, U. Govender, N. Mngqundaniso, K. Annamalai, T. U. Vogel, M. Hammond, M. Bunce, H. M. Coovadia, and B. D. Walker. Rapid Definition of Five Novel HLA-A*3002-Restricted Human Immunodeficiency Virus-Specific Cytotoxic T-Lymphocyte Epitopes by Elispot and Intracellular Cytokine Staining Assays. J. Virol., 75(3):1339-1347, Feb 2001. URL: http://jvi.asm.org/cgi/content/full/75/3/1339. PubMed ID: 11152507. 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 1762

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	RT
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	KY9 (RT-35)
Species (MHC/HLA)	human(A*30:02)
Immunogen	HIV-1 infection
Experimental methods
Keywords

Notes

HLA-A*3002 is very common in African populations, 50% of Zimbabweans express HLA-A30, 44% in African Zulu, so five new HIV epitopes were characterized that are presented by this HLA molecule.
A rapid method was developed combining ELISPOT with intracellular IFN-γ staining of PBMCs to map optimal epitopes, then HLA presenting molecules were defined -- this method was completed within 48 to 72 hours of receipt of blood.
Two individuals were studied: Subject 199 (HLA A*0201/*3002 B*4402/51 Cw2/5), a Caucasian, and Subject 6007 (HLA A*3002/ B53/*5801 Cw4/7) an African-Caribbean.
In both HLA-A*3002 individuals the response to RSLYNTVATLY was dominant.
In subject 199 four additional A*3002 epitopes were identified.
Three quantitative assays, ELISPOT, precursor frequency and chromium release, confirmed a hierarchy of response: RY11 (p17) > KY9 (gp41) > KY9 (RT-53) > IY9 (gp41)

References

Displaying record number 53329

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	( C consensus)
Epitope	`KLNWASQIY`	Epitope Alignment
Subtype	C
Species (MHC/HLA)	human(A*30:02)
Immunogen	HIV-1 infection
Country	South Africa
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	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 54007

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	( C consensus)
Epitope	`KLNWASQIY`	Epitope Alignment
Subtype	C
Species (MHC/HLA)	human(A*30:02)
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.
KLNWASQIY is an optimal epitope.

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 59923

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	Pol(418-426)
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	KIY9
Species (MHC/HLA)	human(B*15:01)
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.
KLNWASQIY had a significantly positive association with HLA B*1501; it was recognized by 7/23 B*1501-positive subjects and 14/238 B*1501-negative subjects.

References

Displaying record number 59926

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	Pol(418-426)
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	KIY9
Species (MHC/HLA)	human(B*15:02)
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.
KLNWASQIY had a significantly positive association with HLA B*1502; it was recognized by 1/1 B*1502-positive subjects and 5/184 B*1502-negative subjects.

References

Displaying record number 59921

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	Pol(418-426)
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	KIY9
Species (MHC/HLA)	human(B35:02, B35:03, B*53:01)
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.
KLNWASQIY had a significantly positive association with HLA B*3502,B*3503,B*5301; it was recognized by 9/27 B*3502,B*3503,B*5301-positive subjects and 21/261 B*3502,B*3503,B*5301-negative subjects.

References

Displaying record number 59928

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	Pol(418-426)
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	KIY9
Species (MHC/HLA)	human(C*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.
KLNWASQIY had a significantly positive association with HLA C*02; it was recognized by 4/31 C*02-positive subjects and 6/185 C*02-negative subjects.

References

Displaying record number 59924

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HXB2 Location	Pol(418-426) RT(263-271) DNA(3336..3362)	Pol Epitope Map
Author Location	Pol(418-426)
Epitope	`KLNWASQIY`	Epitope Alignment
Epitope Name	KIY9
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.
KLNWASQIY had a significantly positive association with HLA C*14; it was recognized by 2/11 C*14-positive subjects and 3/173 C*14-negative subjects.

References

Displaying record number 63031

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HXB2 Location	Pol(418-426) RT(263-271)	Pol Epitope Map
Author Location	( SUMA)
Epitope	`KLNWASQIY`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human
Immunogen	HIV-1 infection
Patient MHC/HLA	SUMA: A11:03, A24:02, B14:02, B15:01, C08:02, C12:03
Country	United States
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	dynamics, acute/early infection, autologous responses

Notes

Yang2019 developed mathematical models with the Jones2004 dataset & concluded that, in general, relative CTL response breadth increased moderately during the first symptomatic month and then remained relatively stable through the first 400 days post-infection. Analysis also suggested slow expansion kinetics for most HIV-specific CTL responses and the presence of intra- and interclonal competition.
The patient SUMA maintained low viral loads and stable CD4 T cell counts through seven years of follow up. In contrast to more rapid progressors, WEAU and BORI, SUMA had a broader response, with little immunodominance.
The dynamics of a KLNWASQIY-specific CTL response in patient SUMA are shown in Fig. S1 of Yang2019 but this response was not published in Jones2004.

References

Jones2004 Nicola A. Jones, Xiping Wei, Darren R. Flower, MaiLee Wong, Franziska Michor, Michael S. Saag, Beatrice H. Hahn, Martin A. Nowak, George M. Shaw, and Persephone Borrow. Determinants of Human Immunodeficiency Virus Type 1 Escape from the Primary CD8+ Cytotoxic T Lymphocyte Response. J. Exp. Med., 200(10):1243-1256, 15 Nov 2004. PubMed ID: 15545352. Show all entries for this paper.

Yang2019 Yiding Yang, and Vitaly V. Ganusov. Defining Kinetic Properties of HIV-Specific CD8(+) T-Cell Responses in Acute Infection. Microorganisms, 7(3):microorganisms7030069 doi, Mar 2019. PubMed ID: 30836625 Show all entries for this paper.