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Found 10 matching records:

Displaying record number 60609

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HXB2 Location	Gag(254-262) p24(122-130) DNA(1549..1575)	Gag Epitope Map
Author Location	p24(122-130)
Epitope	`PPIPVGEIY`	Epitope Alignment
		Show epitope variants
Epitope Name	PY-9
Subtype	B
Species (MHC/HLA)	human(B35, B35:01, B35:02, B53)
Immunogen	HIV-1 infection
Experimental methods
Keywords

Notes

Subtype-specific substitutions in two HIV Gag regions (fragments F1, amino acids (aa) 5-46, and F2 aa 100-143) result in novel adaptations that affect epitope processing efficiency. Consequent low epitope abundance is associated with weak T cell response and greater immune escape and therefore with disease state. Conversely, epitopes from these regions when restricted by certain rare HLA I alleles, are associated with greater production and resulting CTL response, therefore delayed disease progression.
Most epitopes were found to be processed as precursors with N-terminal extensions beyond the optimal epitope. Only 4 epitopes in this region were associated with delayed progression - HLA-B*5701/03-restricted IW9 (ISPRTLNAW), KF11 (KAFSPEVIPMF), TW10 (TSTLQEQIGW) and HLA-B*2705-restricted KK10 (KRWIILGLNK).
Regardless of ethnic group, white or African, a significant three-way interaction was found between HLA allelic frequency, epitope yield and ethnicity for epitopes of N-terminal fragment F1 (NF1) and C-terminal as well as middle F2 (CF2 and MF2). C-terminal F1 (CF1) epitope yields however, showed a significant difference between ethnic groups. Also, for identical HLA-mediated selection pressure in both Africans and whites, HIV-C had a lower concentration than HIV-B, especially at lower HLA allelic frequencies.
Epitope PPIPVGEIY, the subtype B form of PY-9, restricted by HLA-B*35, B*3501, B*3502, B*53, when studied from fragment NF2-MF2, had natural processed epitope forms, IGWMTNNPPIPVGEIY, MTNNPPIPVGEIY, TNNPPIPVGEIY, NNPPIPVGEIY, PPIPVGEIY, with respective %s of 60, 4, 1, 26, 9 after 4 hours processing through constitutive proteasomes, and %s of 26, 28, 19, 10, 17 after 4h through immuno proteasomes respectively. When studied from fragment CF2, had natural processed epitope forms TNNPPIPVGEIY, NNPPIPVGEIY, NPPIPVGEIY, PPIPVGEIY, with respective %s of 85, 8, 3, 4 after 4 hours processing through constitutive proteasomes, and %s of 86, 4, 5, 5 after 4h through immuno proteasomes respectively.

References

Tenzer2014 Stefan Tenzer, Hayley Crawford, Phillip Pymm, Robert Gifford, Vattipally B. Sreenu, Mirjana Weimershaus, Tulio de Oliveira, Anne Burgevin, Jan Gerstoft, Nadja Akkad, Daniel Lunn, Lars Fugger, John Bell, Hansjörg Schild, Peter van Endert, and Astrid K. N. Iversen. HIV-1 Adaptation to Antigen Processing Results in Population-Level Immune Evasion and Affects Subtype Diversification. Cell Rep., 7(2):448-463, 24 Apr 2014. PubMed ID: 24726370. Show all entries for this paper.

Displaying record number 242

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HXB2 Location	Gag(254-262) p24(122-130) DNA(1549..1575)	Gag Epitope Map
Author Location	p24( subtype B)
Epitope	`PPIPVGEIY`	Epitope Alignment
		Show epitope variants
Subtype	B
Species (MHC/HLA)	human(B35)
Immunogen	HIV-1 exposed seronegative
Experimental methods
Keywords	subtype comparisons

Notes

HIV-specific CTL were found in exposed seronegative prostitutes from Nairobi -- these CTL may confer protection.
Seroprevalence in this cohort is 90-95% and their HIV-1 exposure is among the highest in the world.
Most isolated HIV strains are clade A in Nairobi, although clades C and D are also found -- B clade epitopes are often cross-reactive, however stronger responses are frequently observed using A or D clade versions of epitopes.
This epitope is conserved among B and D clade viruses.
The Clade A version of the epitope, PPIPVGDIY, was preferentially recognized by CTL.
Database note: First author "Rowland-Jones" is also found as "RowlandJones" on annotated papers in this database.

References

Rowland-Jones1998 S. L. Rowland-Jones, T. Dong, K. R. Fowke, J. Kimani, P. Krausa, H. Newell, T. Blanchard, K. Ariyoshi, J. Oyugi, E. Ngugi, J. Bwayo, K. S. MacDonald, A. J. McMichael, and F. A. Plummer. Cytotoxic T cell responses to multiple conserved HIV epitopes in HIV-resistant prostitutes in Nairobi. J. Clin. Invest., 102(9):1758-65, 1 Nov 1998. PubMed ID: 9802890. Show all entries for this paper.

Displaying record number 243

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HXB2 Location	Gag(254-262) p24(122-130) DNA(1549..1575)	Gag Epitope Map
Author Location
Epitope	`PPIPVGEIY`	Epitope Alignment
Species (MHC/HLA)	human(B35)
Immunogen	HIV-1 infection
Experimental methods
Keywords	acute/early infection

Notes

Three individuals with highly focused HIV-specific CTL responses were studied during acute infection using tetramers---high frequencies of HIV-1-specific CD8+ T cells were found prior to seroconversion, and there was a close temporal relationship between the number of circulating HIV-specific T cells and viral load.
All three patients were B*2705, with HLA alleles: A1, A30/31, B*2705, B35; A1, A*0301, B7, B2705; and A*0201, A*0301, B2705, B39.
ELISPOT was used to test a panel of CTL epitopes that had been defined earlier and were appropriate for the HLA haplotypes of the study subjects -- 3/3 subjects showed a dominant response to the B*2705 epitope KRWIILGGLNK.
The subject with A*0201 had a moderately strong response to SLYNTVATL.
Weak responses were observed to A*301-RLRPGGKKK, A*301-QVPLRPMTYK, and B7-TPGPGVRYPL in the subject who was HLA A1, A*0301, B7, B*2705.
No acute response was detected to the following epitopes: A*201-ILKEPVHGV, A*301-KIRLRPGGK, A*301-AIFQSSMTK, A*301-TVYYGVPVWK, B35-EPIVGAETF, B35-HPDIVIYQY, B35-PPIPVGEIY, B35-NSSKVSQNY, B35-VPLRPMTY, B35-DPNPQEVVL.

References

Wilson2000 J. D. Wilson, G. S. Ogg, R. L. Allen, C. Davis, S. Shaunak, J. Downie, W. Dyer, C. Workman, S. Sullivan, A. J. McMichael, and S. L. Rowland-Jones. Direct Visualization of HIV-1-Specific Cytotoxic T Lymphocytes During Primary Infection. AIDS, 14:225-233, 2000. PubMed ID: 10716497. Show all entries for this paper.

Displaying record number 52422

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HXB2 Location	Gag(254-262) p24(122-130) DNA(1549..1575)	Gag Epitope Map
Author Location	p24
Epitope	`PPIPVGEIY`	Epitope Alignment
Subtype	A, B, C, D
Species (MHC/HLA)	human(B35)
Immunogen	HIV-1 infection, vaccine
Experimental methods
Keywords	subtype comparisons, epitope processing, vaccine-induced immune responses, immunodominance

Vaccine Details

Vaccine type	DNA prime with modified vaccinia Ankara (MVA) boost
Vaccine strain	A clade
Vaccine component	p17 Gag, p24 Gag

Notes

The HIV-1 subtype A focused vaccine HIVA contains p24 and p17, in a reversed order relative to the Gag polyprotein to prevent myristylation of p17, which could direct the protein to the cell membrane and inhibit efficient peptide processing and class I presentation, as well as a polyepitope string of conserved, often immunodominant epitopes that were selected to have particularly good cross-reactive potential for the A-clade epidemic in Nairobi, Kenya. A DNA and MVA prime-boost vaccination protocol using the HIVA antigen will be used in a phase III clinical trial in Kenya. This epitope is included in the polyepitope string Hanke2000.
Multiple CD4+ or CD8+ T-cell vaccine-induced responses to peptide pools were detected using intracellular cytokine staining and IFNgamma Elispot assays after vaccination of 5 macaques. The response to the Mamu A*01 SIV p27 epitope p11C (CTPYDINQM), included in the polyepitope region, was not immunodominant in the Mamu A*01 vaccinated macaques, possibly because of processing limitations in context of the artificial polyepitope string Wee2002.

References

Hanke2000 Tomas Hanke and Andrew J. McMichael. Design and construction of an experimental HIV-1 vaccine for a year-2000 clinical trial in Kenya. Nat. Med., 6(9):951-955, Sep 2000. PubMed ID: 10973301. Show all entries for this paper.

Wee2002 Edmund G.-T. Wee, Sandip Patel, Andrew J. McMichael, and Tomáš Hanke. A DNA/MVA-Based Candidate Human Immunodeficiency Virus Vaccine for Kenya Induces Multi-Specific T Cell Responses in Rhesus Macaques. J. Gen. Virol., 83(Pt 1):75-80, Jan 2002. PubMed ID: 11752703. Show all entries for this paper.

Displaying record number 53043

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HXB2 Location	Gag(254-262) p24(122-130) DNA(1549..1575)	Gag Epitope Map
Author Location	Gag
Epitope	`PPIPVGEIY`	Epitope Alignment
Species (MHC/HLA)	human(B35)
Immunogen	HIV-1 infection
Country	Netherlands
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	HIV exposed persistently seronegative (HEPS)

Notes

A high-risk seronegative group of 29 homosexual men showed reduced cellular in vitro susceptibility for HIV infection and enhanced production of RANTES compared to 15 men who went on to seroconvert. Significantly higher frequencies of HLA A*11, A*31 and Cw*15 were also found in the high risk seronegative men. Both groups of men had low frequencies of HIV-1 specific CD8+ T-cells, which may signify exposure more than protection from infection.
No one, 0/3 HLA B35+ infection-resistant men, and 0/5 pre-seroconversion men who went on to become infected, reacted to this epitope.

References

Koning2004 Fransje A. Koning, Christine A. Jansen, Jos Dekker, Richard A. Kaslow, Nicole Dukers, Debbie van Baarle, Maria Prins, and Hanneke Schuitemaker. Correlates of Resistance to HIV-1 Infection in Homosexual Men with High-Risk Sexual Behaviour. AIDS, 18(8):1117-1126, 21 May 2004. PubMed ID: 15166527. Show all entries for this paper.

Displaying record number 53677

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HXB2 Location	Gag(254-262) p24(122-130) DNA(1549..1575)	Gag Epitope Map
Author Location	p24
Epitope	`PPIPVGEIY`	Epitope Alignment
Subtype	B, D
Species (MHC/HLA)	human(B35, B53)
Immunogen	HIV-1 infection
Patient MHC/HLA	A23, A24, B35, B58, Cw4, Cw7; M11814: A23, A24, B35, B58, C04, C07
Country	Democratic Republic of the Congo
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	subtype comparisons

Notes

Cross-clade CTL responses in 10 non-B HIV-1 infected individuals were evaluated. T-cell reactivity was tested against peptide pools of clade B Gag, Pol, Nef, Rev and Tat. Nine individuals demonstrated cross-reactive T-cell responses to clade A, B, and C Gag pools; 6/7 patients that responded to Nef-B also reacted to clade A and C Nef pools. An inverse correlation was observed between the sequence divergence of the HLA class I restricted epitopes and the height of the T-cell responses, which in Gag could be explained through variations in the HLA-anchor residues. 42% of the responses were directed to regions containing new epitopes.
This previously described epitope was embedded in a B clade peptide that was recognized by T-cells from an infected person carrying subtype D Gag. The autologous epitope sequence in this person matched the known epitope. In another D subtype infected individual, it was predicted to be a B53 epitope based on HLA typing of the individual and motifs within the reactive peptide.

References

Geels2005 Mark J. Geels, Sheri A. Dubey, Kiersten Anderson, Elly Baan, Margreet Bakker, Georgios Pollakis, William A. Paxton, John W. Shiver, and Jaap Goudsmit. Broad Cross-Clade T-Cell Responses to Gag in Individuals Infected with Human Immunodeficiency Virus Type 1 Non-B Clades (A to G): Importance of HLA Anchor Residue Conservation. J. Virol., 79(17):11247-11258, Sep 2005. PubMed ID: 16103177. Show all entries for this paper.

Displaying record number 57479

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HXB2 Location	Gag(254-262) p24(122-130) DNA(1549..1575)	Gag Epitope Map
Author Location	Gag(254-262)
Epitope	`PPIPVGEIY`	Epitope Alignment
Epitope Name	PY9
Subtype	B
Species (MHC/HLA)	human(B*35:01)
Immunogen	HIV-1 infection
Country	United Kingdom
Experimental methods	CD8 T-cell Elispot - IFNγ, Cytokine production, Flow cytometric T-cell cytokine assay, HLA binding
Keywords	computational epitope prediction

Notes

44 candidate B*3501-restricted epitopes were predicted by computational analysis of HIV-1 Gag. Twelve candidates had significant binding affinity for HLA-B*3501. Two previously-unknown candidates also had positive EliSpot responses among 4 chronically-infected B35-positive patients carrying subtype B HIV-1.
Previously-documented B35-restricted epitope PPIPVGEIY had significant binding affinity for HLA-B*3501 and a positive IFN-gamma EliSpot response in 2/4 HLA-B*3501-positive patients.

References

Westrop2009 Samantha J. Westrop, Nathali Grageda, and Nesrina Imami. Novel Approach to Recognition of Predicted HIV-1 Gag B3501-Restricted CD8 T-Cell Epitopes by HLA-B3501+ Patients: Confirmation by Quantitative ELISpot Analyses and Characterisation Using Multimers. J. Immunol. Methods, 341(1-2):76-85, 28 Feb 2009. PubMed ID: 19056394. Show all entries for this paper.

Displaying record number 60680

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HXB2 Location	Gag(254-262) p24(122-130) DNA(1549..1575)	Gag Epitope Map
Author Location	p24(254-262)
Epitope	`PPIPVGEIY`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B*35:01)
Immunogen	HIV-1 infection
Patient MHC/HLA	S2: ; S3:
Country	United States
Experimental methods	CD8 T-cell Elispot - IFNγ, Other
Keywords	dendritic cells, assay or method development, memory cells

Notes

In general, mature IL-12p70-producing dendritic cells (DC) that are responsive to CD40L and loaded with inactive autologous HIV-1 were found to prime naive CTL to respond to a far broader range of conserved and variable Gag peptides than DC-stimulated memory T cells could. Stimulated memory CTL also had lower anti-CD4 T-cell cytolytic function than primed naive CTL. A novel in vitro model of DC immunotherapy was established.
Subject S2 reacted to autologous Gag epitope PPIPVGEIY, part of peptides EQIGWMTNNPPIPVGEIY and WMTNNPPIPVGEIYKRWI which elicited responses of 234 SFC/10⁶ cells from DC-primed naive T cells versus 0 from primed memory cells but contrary to most cases, the second peptide elicited 109 SFC/10⁶ cells from naive cells as opposed to 1584 from DC-stimulated memory T cells. Subject S3 for whom peptides QIGWMThNPPIPVGEIYK and MThNPPIPVGEIYKRWII were used, elicited 349 and 29 for naive T versus 0 SFC/10⁶ cells for memory T cells.
This epitope is a variant of previously determined epitope, PPIPVGDIY.

References

Smith2016 Kellie N. Smith, Robbie B. Mailliard, Paolo A. Piazza, Will Fischer, Bette T. Korber, Ronald J. Fecek, Deena Ratner, Phalguni Gupta, James I. Mullins, and Charles R. Rinaldo. Effective Cytotoxic T Lymphocyte Targeting of Persistent HIV-1 during Antiretroviral Therapy Requires Priming of Naive CD8+ T Cells. MBio, 7(3), 31 May 2016. PubMed ID: 27247230. Show all entries for this paper.

Displaying record number 52963

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HXB2 Location	Gag(254-262) p24(122-130) DNA(1549..1575)	Gag Epitope Map
Author Location	Gag(254-262)
Epitope	`PPIPVGEIY`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B7 supertype)
Immunogen	vaccine
Experimental methods	CD8 T-cell Elispot - IFNγ, Chromium-release assay, Proliferation
Keywords	vaccine-induced immune responses, variant cross-reactivity

Vaccine Details

Vaccine type	lipopeptide
Vaccine strain	B clade LAI
Vaccine component	Env, Gag, Nef
Adjuvant	QS21

Notes

After injection of an anti-HIV-1 lipopeptide vaccine and the booster injections, a response was observed in >85% of 28 volunteers, and a long-term immune response was observed in >50% of the volunteers. A positive effect of QS21 adjuvant was found for B-and CD4+T-cell responses. A higher number of CD8+ T-cell epitopes was induced after a fourth boost injection. This epitope was one of the 31 epitopes that the vaccinated volunteers responded to.

References

Gahery-Segard2003 Hanne Gahéry-Ségard, Gilles Pialoux, Suzanne Figueiredo, Céline Igéa, Mathieu Surenaud, Jessintha Gaston, Helene Gras-Masse, Jean-Paul Lévy, and Jean-Gérard Guillet. Long-Term Specific Immune Responses Induced in Humans by a Human Immunodeficiency Virus Type 1 Lipopeptide Vaccine: Characterization of CD8+-T-Cell Epitopes Recognized. J. Virol., 77(20):11220-11231, Oct 2003. PubMed ID: 14512570. Show all entries for this paper.

Displaying record number 56011

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HXB2 Location	Gag(254-262) p24(122-130) DNA(1549..1575)	Gag Epitope Map
Author Location	p24
Epitope	`PPIPVGEIY`	Epitope Alignment
		Show epitope variants
Epitope Name	PY9(p24)
Subtype	B
Species (MHC/HLA)	human
Immunogen	HIV-1 infection
Country	China
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	variant cross-reactivity, 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.
Author defined epitope PPIPVGEIY elicited an immune response in Chinese HIV-1 positive subjects as part of peptide WMTNNPPIPVGEIYKRWI. This epitope differs from the previously described HLA-B35-restricted epitope, PPIPVGDIY, at 1 residue, PPIPVGeIY; and from another previously described epitope, NPVPVGNIY, at 3 residues, pPiPVGeIY.
3 of the 12 HLA-B35 carriers responded to PPIPVGeIY-containing peptide with average magnitude of CTL response of 150 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.