Search CTL/CD8+ T-Cell Epitope Database

Found 12 matching records:

Displaying record number 59423

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	Gag
Epitope	`NANPDCKTI`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human(B*51)
Immunogen	HIV-1 infection
Patient MHC/HLA	LTNP/EC-4: A03, A11, B35, B51, C04, C15; CP-1: A02, A11, B08, B51, C04, C07; CP-4: A02, B44, B51, C05, C14; SP-4: A02, A30, B44, B51, C02, C*05
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, immunodominance

Notes

The study compared B*27/*57-positive versus negative patients among a cohort of long-term nonprogressors and elite controllers with B*27/B*57-negative progressors. Overlapping 15-mers that elicited responses in multiple patients, or were among the strongest responses in a single patient, were narrowed down by truncation to define optimal epitopes, 11 of which were novel.
NANPDCKTI was recognized by 4/8 LTNP/EC, and 3/4 had it as a dominant response. The restricting HLA (B*51) was confirmed experimentally.

References

Migueles2015 Stephen A. Migueles, Daniel Mendoza, Matthew G. Zimmerman, Kelly M. Martins, Sushila A. Toulmin, Elizabeth P. Kelly, Bennett A. Peterson, Sarah A. Johnson, Eric Galson, Kate O. Poropatich, Andy Patamawenu, Hiromi Imamichi, Alexander Ober, Catherine A. Rehm, Sara Jones, Claire W. Hallahan, Dean A. Follmann, and Mark Connors. CD8+ T-Cell Cytotoxic Capacity Associated with Human Immunodeficiency Virus-1 Control Can Be Mediated through Various Epitopes and Human Leukocyte Antigen Types. EBioMedicine, 2(1):46-58, Jan 2015. PubMed ID: 26137533. Show all entries for this paper.

Displaying record number 58394

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	Gag(327-335 IIIB, MN)
Epitope	`NANPDCKTI`	Epitope Alignment
		Show epitope variants
Epitope Name	NI9
Subtype	B
Species (MHC/HLA)	human(B*51)
Immunogen	HIV-1 infection
Country	China
Experimental methods	CD8 T-cell Elispot - IFNγ, CTL suppression of replication
Keywords	rate of progression, immunodominance, escape, HLA associated polymorphism, elite controllers

Notes

To study the beneficial effects of HLA-B*51 without confounding founder effects, 22 HLA-B*51+ subjects selected from a Chinese cohort of plasma-route HIV-infected individuals, without ART for 10 years, were studied. Progression to AIDS was associated with sequential mutation selection and subsequent CTL response within 3 immunodominant epitopes, in order - Pol LPPVVAKEI (LI9), followed by Gag NANPDCKTI (NI9) and then Pol TAFTIPSI (TI8). Thus a multi-layered response is suggested to be beneficial for control in B*51-carrying controllers.
The order of mutations in HIV-1 appears to be the L743I mutation at position 1 of the LI9 epitope followed by the V289L mutation at position 8 of TV8 epitope and then the A328S mutation in position 2 of the NI9 epitope.
Epitope NANPDCKTI, NI9, was the second-most immunodominant in HLA-B51+ subjects, with 64% frequency of recognition with a mean magnitude of >1000 SFU/million PBMC when CTL response is measured by ex vivo EliSpot. 8/22 B-51+ and 97/126 B-51- subjects carried this wild type sequence. Mutations in NI9 are associated with low CD4+ counts in HLA-B51+ subjects.

References

Zhang2011 YongHong Zhang, YanChun Peng, HuiPing Yan, Keyi Xu, Masumichi Saito, Hao Wu, XinYue Chen, Srinika Ranasinghe, Nozomi Kuse, Tim Powell, Yan Zhao, WeiHua Li, Xin Zhang, Xia Feng, Ning Li, Aleksandra Leligdowicz, XiaoNing Xu, Mina John, Masafumi Takiguchi, Andrew McMichael, Sarah Rowland-Jones, and Tao Dong. Multilayered Defense in HLA-B51-Associated HIV Viral Control. J. Immunol., 187(2):684-691, 15 Jul 2011. PubMed ID: 21670313. Show all entries for this paper.

Displaying record number 1386

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	p24(323-333)
Epitope	`NANPDCKTI`	Epitope Alignment
Epitope Name	NAN
Species (MHC/HLA)	human(B51)
Immunogen	HIV-1 infection
Experimental methods
Keywords	HAART, ART, acute/early infection

Notes

Patients who started therapy at acute HIV-1 infection (three with sustained therapy, two with limited therapy upon early infection) had strong HIV specific CD4 proliferative responses and were able to maintain a CTL response even with undetectable viral load -- three patients that had delayed initiation of HAART had no HIV specific CD4 proliferative responses and lost their CTL responses when HAART was eventually given and their viral loads became undetectable.
None of the 8 study subjects recognized this epitope but none were HLA B51+

References

Oxenius2000b A. Oxenius, D. A. Price, P. J. Easterbrook, C. A. O'Callaghan, A. D. Kelleher, J. A. Whelan, G. Sontag, A. K. Sewell, and R. E. Phillips. Early highly active antiretroviral therapy for acute HIV-1 infection preserves immune function of CD8+ and CD4+ T lymphocytes. Proc. Natl. Acad. Sci. U.S.A., 97(7):3382-7, 28 Mar 2000. URL: http://www.pnas.org/cgi/content/full/97/7/3382. PubMed ID: 10737796. Show all entries for this paper.

Displaying record number 52979

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	p24(193-201)
Epitope	`NANPDCKTI`	Epitope Alignment
Species (MHC/HLA)	human(B51)
Immunogen	HIV-1 infection
Patient MHC/HLA	A3, A32, B15, B51, C*03, Cw6, DQ7, DR4, DR8
Country	Netherlands
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, escape

Notes

Both stable potential epitopes and epitopes with escape mutations were found in a patient with increasing viral load over a time period of 4 years. Fixation of escape mutations occurred sequentially and correlated with the rise in viral load and with the increased number of productively infected cells.
This is one of 17 potential epitopes from this individual, defined based on previously identified epitopes presented by appropriate HLA molecules. Full length genome sequence did not reveal changes in time in any of these epitopes over a four year period. Peptide pools initially revealed very little response to these epitopes, but this increased over time.

References

Geels2003 Mark J. Geels, Marion Cornelissen, Hanneke Schuitemaker, Kiersten Anderson, David Kwa, Jolanda Maas, John T. Dekker, Elly Baan, Fokla Zorgdrager, Remco van den Burg, Martijn van Beelen, Vladimir V. Lukashov, Tong-Ming Fu, William A. Paxton, Lia van der Hoek, Sheri A. Dubey, John W. Shiver, and Jaap Goudsmit. Identification of Sequential Viral Escape Mutants Associated with Altered T-Cell Responses in a Human Immunodeficiency Virus Type 1-Infected Individual. J. Virol., 77(23):12430-12440, Dec 2003. PubMed ID: 14610167. Show all entries for this paper.

Displaying record number 53456

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	p24
Epitope	`NANPDCKTI`	Epitope Alignment
Species (MHC/HLA)	human(B51)
Immunogen	HIV-1 infection
Patient MHC/HLA	A1, A32, B14:10, B15; A31:01, A68, B*44:03, B51
Country	Spain
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	HAART, ART, supervised treatment interruptions (STI)

Notes

T cell immune responses following STI were monitored in two chronically HIV-1 infected partners (A and B) who had contracted HIV-1 during 1992. STI induced strong transitory CD4+ and CD8+ T cell responses in both patients. The viruses remained very closely related over 10 years, despite the two individuals having different HLA types; the authors suggest the maintained similarity does not support a strong role for HLA driven HIV diversity as has been claimed in Moore et al. (Science 2002).
During the second treatment stop, patient A developed a strong proliferative response to p24, and multiple strong CD8+ T cell repsonses to Env, Pol, Gag and Nef. This patient was able to control viral load for two years follow up without therapy. Patient B developed a very weak CD4+ T cell response against p24 during breaks in therapy, and had CD8+ responses to two epitopes. Patient A: A01, A32, B*1410, B15; Patient B: A*3101, A68, B*4403, B51.

References

Arnedo-Valero2004 Mireia Arnedo-Valero, Montserrat Plana, Antonio Mas, Meritxell Guilà, Cristina Gil, Pedro Castro, Felipe Garcia, Esteban Domingo, Josep Ma Gatell, and Tomàs Pumarola. Similar HIV-1 Evolution and Immunological Responses at 10 Years Despite Several Therapeutic Strategies and Host HLA Types. J. Med. Virol., 73(4):495-501, Aug 2004. PubMed ID: 15221891. Show all entries for this paper.

Displaying record number 350

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	p24(324-335 IIIB)
Epitope	`NANPDCKTI`	Epitope Alignment
Species (MHC/HLA)	human(B51)
Immunogen	HIV-1 infection
Experimental methods
Keywords	responses in children, mother-to-infant transmission, escape

Notes

This study describes maternal CTL responses in the context of mother-to-infant transmission.
Detection of CTL escape mutants in the mother was associated with transmission, but the CTL-susceptible forms of the virus tended to be found in infected infants.
No variants of this epitope were found in a non-transmitting mother that had a CTL response to this epitope.

References

Wilson1999a C. C. Wilson, R. C. Brown, B. T. Korber, B. M. Wilkes, D. J. Ruhl, D. Sakamoto, K. Kunstman, K. Luzuriaga, I. C. Hanson, S. M. Widmayer, A. Wiznia, S. Clapp, A. J. Ammann, R. A. Koup, S. M. Wolinsky, and B. D. Walker. Frequent Detection of Escape from Cytotoxic T-Lymphocyte Recognition in Perinatal Human Immunodeficiency Virus (HIV) Type 1 Transmission: The Ariel Project for the Prevention of Transmission of HIV from Mother to Infant. J. Virol., 73:3975-3985, 1999. PubMed ID: 10196293. Show all entries for this paper.

Displaying record number 349

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	Gag(327-335 SF2)
Epitope	`NANPDCKTI`	Epitope Alignment
		Show epitope variants
Species (MHC/HLA)	human(B*51:01)
Immunogen	HIV-1 infection
Experimental methods
Keywords	subtype comparisons, rate of progression

Notes

HLA-B27, -B51, and -B57 are associated with slow progression to AIDS, while HLA-B35, -B8, -B24 are associated with a rapid progression to AIDS (Nat. Med. 2:405, 1996;Lancet 22:1187, 1986;Hum Immunol 22:73, 1988;Hum Immunol 44:156, 1995)
15% of Japanese populations carry HLA-B51 while HLA-B27 and -B57 are detected in less than 0.3%
Of the 172 HIV-1 peptides with HLA-B*5101 anchor residues, 33 bound to HLA-B*5101, seven of these peptides were reactive with CTL from 3 B*5101 positive individuals, and six were properly processed.
Four of the six epitopes were highly conserved among B subtype sequences, NANPDCKTI is conserved.

References

Tomiyama1999 H. Tomiyama, T. Sakaguchi, K. Miwa, S. Oka, A. Iwamoto, Y. Kaneko, and M. Takiguchi. Identification of multiple HIV-1 CTL epitopes presented by HLA-B*5101. Hum. Immunol., 60:177-86, 1999. PubMed ID: 10321954. Show all entries for this paper.

Displaying record number 57642

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	Gag(327-329)
Epitope	`NANPDCKTI`	Epitope Alignment
Epitope Name	Gag327-9
Subtype	B
Species (MHC/HLA)	human(B*51:01)
Immunogen	HIV-1 infection
Country	Japan
Experimental methods	CD8 T-cell Elispot - IFNγ, Chromium-release assay, Flow cytometric T-cell cytokine assay
Keywords	rate of progression

Notes

HLA B*5101 is associated with slow progression to AIDS. Responses to previously-documented epitopes were studied in ART-naive slow-progressing and non-progressing B*5101-positive hemophiliacs.
8/10 HLA B*5101-positive slow- and non-progressing individuals had CD8+ T cells specific for NANPDCKTI.

References

Kawashima2010 Yuka Kawashima, Nozomi Kuse, Hiroyuki Gatanaga, Takuya Naruto, Mamoru Fujiwara, Sachi Dohki, Tomohiro Akahoshi, Katsumi Maenaka, Philip Goulder, Shinichi Oka, and Masafumi Takiguchi. Long-Term Control of HIV-1 in Hemophiliacs Carrying Slow-Progressing Allele HLA-B*5101. J. Virol., 84(14):7151-7160, Jul 2010. PubMed ID: 20410273. Show all entries for this paper.

Displaying record number 53159

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	p24(193-201)
Epitope	`NANPDCKTI`	Epitope Alignment
		Show epitope variants
Species (MHC/HLA)	human(B*51:01)
Immunogen	HIV-1 infection
Patient MHC/HLA	A02:01, A31, B27, B51:01, C02; A24:02, A26, B07, B51:01, C07
Country	Japan
Experimental methods	Chromium-release assay
Keywords	epitope processing, escape

Notes

Epitope variants escaped from being killed by CTLs in an endogenous expression system although they were recognized when corresponding synthetic peptides were exogenously loaded onto the cells. Escape is thus probably due to changes that occur during the processing and the presentation of epitopes in infected cells.
Epitope variant nSnpdckNi was not recognized when added exogenously or when processed endogenously, but the mutations were in anchor residues and presumably inhibited binding to B*5101.

References

Yokomaku2004 Yoshiyuki Yokomaku, Hideka Miura, Hiroko Tomiyama, Ai Kawana-Tachikawa, Masafumi Takiguchi, Asato Kojima, Yoshiyuki Nagai, Aikichi Iwamoto, Zene Matsuda, and Koya Ariyoshi. Impaired Processing and Presentation of Cytotoxic-T-Lymphocyte (CTL) Epitopes Are Major Escape Mechanisms from CTL Immune Pressure in Human Immunodeficiency Virus Type 1 Infection. J. Virol., 78(3):1324-1332, Feb 2004. PubMed ID: 14722287. Show all entries for this paper.

Displaying record number 1458

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	p24(191-205)
Epitope	`NANPDCKTI`	Epitope Alignment
Species (MHC/HLA)	human(B8)
Immunogen	HIV-1 infection
Experimental methods
Keywords

Notes

One of the 51 HIV-1 epitopes selected by Ferrari et al. as good candidate CTL epitopes for vaccines by virtue of being conserved and presented by common HLA alleles.

References

Ferrari2000 G. Ferrari, D. D. Kostyu, J. Cox, D. V. Dawson, J. Flores, K. J. Weinhold, and S. Osmanov. Identification of highly conserved and broadly cross-reactive HIV type 1 cytotoxic T lymphocyte epitopes as candidate immunogens for inclusion in Mycobacterium bovis BCG-vectored HIV vaccines. AIDS Res. Hum. Retroviruses, 16(14):1433-43, 20 Sep 2000. PubMed ID: 11018863. Show all entries for this paper.

Displaying record number 58938

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	Gag
Epitope	`NANPDCKTI`	Epitope Alignment
Subtype	A
Species (MHC/HLA)	human
Immunogen	HIV-1 infection
Country	Kenya, Pakistan
Experimental methods	Other
Keywords	epitope processing

Notes

To compare epitopes generated in diverse genetic populations due to the mutations that affect respective antigen processing, 29 Kenyan and 56 Pakistani subjects infected with HIV-1 subtype A were studied. HIV-1 Gag was sequenced for mutations affecting proteasomal degradation, TAP or HLA binding and CTL epitope generation. Epitope patterns were found to be altered due to population-specific mutations in epitope-generating pathways.
Several predicted epitopes of differential frequency were shown in this study (see Table 1). Only epitopes immunologically verified previously are annotated here.
Epitope NANPDCKTI was generated from HIV-1 subtype A for HLA-presentation in Pakistani but not Kenyan populations.

References

Abidi2013 Syed H. Abidi, Aniqa Shahid, Laila S. Lakhani, Muhammad R. Khanani, Peter Ojwang, Nancy Okinda, Reena Shah, Farhat Abbas, Sarah Rowland-Jones, and Syed Ali. Population-Specific Evolution of HIV Gag Epitopes in Genetically Diverged Patients. Infect. Genet. Evol., 16:78-86, Jun 2013. PubMed ID: 23403357. Show all entries for this paper.

Displaying record number 59422

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HXB2 Location	Gag(325-333) p24(193-201) DNA(1762..1788)	Gag Epitope Map
Author Location	Gag
Epitope	`NANPDCKTI`	Epitope Alignment
Subtype	B
Species (MHC/HLA)	human
Immunogen	HIV-1 infection
Patient MHC/HLA	LTNP/EC-17: A11, A24, B35, B38, C04, C12
Experimental methods	CD8 T-cell Elispot - IFNγ, Flow cytometric T-cell cytokine assay
Keywords	rate of progression, immunodominance

Notes

The study compared B*27/*57-positive versus negative patients among a cohort of long-term nonprogressors and elite controllers with B*27/B*57-negative progressors. Overlapping 15-mers that elicited responses in multiple patients, or were among the strongest responses in a single patient, were narrowed down by truncation to define optimal epitopes, 11 of which were novel.
NANPDCKTI was recognized by 2/4 LTNP/EC, and 1/2 had it as a dominant response. The restricting HLA (B*35) was predicted, not confirmed experimentally.