Immune Screening Identifies Novel T Cell Targets Encoded by Antisense Reading Frames of HIV-1

被引：22

作者：

Berger, Christoph T. ^{[1
,2
,3
]}

Llano, Anuska ^{[4
]}

Carlson, Jonathan M. ^{[5
]}

Brumme, Zabrina L. ^{[6
,7
]}

Brockman, Mark A. ^{[6
,7
]}

Cedeno, Samandhy ^{[4
]}

Harrigan, P. Richard ^{[7
]}

Kaufmann, Daniel E. ^{[1
,2
,8
]}

Heckerman, David ^{[5
]}

Meyerhans, Andreas ^{[9
,10
]}

Brander, Christian ^{[4
,10
,11
,12
,13
]}

机构：

[1] MIT, Ragon Inst MGH, Boston, MA USA

[2] Harvard Univ, Boston, MA 02115 USA

[3] Univ Basel Hosp, Dept Biomed, Translat Immunol, CH-4031 Basel, Switzerland

[4] Hosp Badalona Germans Trias & Pujol, IrsiCaixa AIDS Res Inst HIVACAT, Badalona, Spain

[5] Microsoft Res, Seattle, WA USA

[6] Simon Fraser Univ, Burnaby, BC V5A 1S6, Canada

[7] British Columbia Ctr Excellence HIV AIDS, Vancouver, BC, Canada

[8] Univ Montreal, Hosp Res Ctr CRCHUM, Montreal, PQ, Canada

[9] Univ Pompeu Fabra, Dept Expt & Hlth Sci, Infect Biol Grp, Barcelona, Spain

[10] Inst Catalana Recerca & Estudis Avancats, Barcelona, Spain

[11] Univ Vic, Vic, Catalonia, Spain

[12] Cent Univ Catalonia, Vic, Catalonia, Spain

[13] Autonomous Univ Barcelona, Barcelona, Catalonia, Spain

来源：

JOURNAL OF VIROLOGY | 2015年 / 89卷 / 07期

基金：

瑞士国家科学基金会; 加拿大健康研究院;

关键词：

HUMAN-IMMUNODEFICIENCY-VIRUS; RESPONSES; INFECTION; PRESSURE; EPITOPES; VIREMIA; PROTEIN;

D O I：

10.1128/JVI.03435-14

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

Cytotoxic-T lymphocyte (CTL) responses to epitopes in alternative HIV reading frames have been reported. However, the extent of CTL responses to putative proteins encoded in antisense reading frames is unknown. Using sequence alignments and computational approaches, we here predict five potential antisense HIV proteins and characterize common CTL responses against them. Results suggest that antisense-derived sequences are commonly transcribed and translated and could encode functional proteins that contain important targets of anti-HIV cellular immunity.

引用

页码：4015 / 4019

页数：5

共 18 条

[1] CD8 T cell response and evolutionary pressure to HIV-1 cryptic epitopes derived from antisense transcription [J].

Bansal, Anju ;

Carlson, Jonathan ;

Yan, Jiyu ;

Akinsiku, Olusimidele T. ;

Schaefer, Malinda ;

Sabbaj, Steffanie ;

Bet, Anne ;

Levy, David N. ;

Heath, Sonya ;

Tang, Jianming ;

Kaslow, Richard A. ;

Walker, Bruce D. ;

Ndung'u, Thumbi ;

Goulder, Philip J. ;

Heckerman, David ;

Hunter, Eric ;

Goepfert, Paul A. .

JOURNAL OF EXPERIMENTAL MEDICINE, 2010, 207 (01) :51-59

[2] Viral adaptation to immune selection pressure by HLA class I-restricted CTL responses targeting epitopes in HIV frameshift sequences [J].

Berger, Christoph T. ;

Carlson, Jonathan M. ;

Brumme, Chanson J. ;

Hartman, Kari L. ;

Brumme, Zabrina L. ;

Henry, Leah M. ;

Rosato, Pamela C. ;

Piechocka-Trocha, Alicja ;

Brockman, Mark A. ;

Harrigan, P. Richard ;

Heckerman, David ;

Kaufmann, Daniel E. ;

Brander, Christian .

JOURNAL OF EXPERIMENTAL MEDICINE, 2010, 207 (01) :61-75

[3] Correlates of Protective Cellular Immunity Revealed by Analysis of Population-Level Immune Escape Pathways in HIV-1 [J].

Carlson, Jonathan M. ;

Brumme, Chanson J. ;

Martin, Eric ;

Listgarten, Jennifer ;

Brockman, Mark A. ;

Le, Anh Q. ;

Chui, Celia K. S. ;

Cotton, Laura A. ;

Knapp, David J. H. F. ;

Riddler, Sharon A. ;

Haubrich, Richard ;

Nelson, George ;

Pfeifer, Nico ;

DeZiel, Charles E. ;

Heckerman, David ;

Apps, Richard ;

Carrington, Mary ;

Mallal, Simon ;

Harrigan, P. Richard ;

John, Mina ;

Brumme, Zabrina L. .

JOURNAL OF VIROLOGY, 2012, 86 (24) :13202-13216

[4] Influence of HAART on Alternative Reading Frame Immune Responses over the Course of HIV-1 Infection [J].

Champiat, Stephane ;

Raposo, Rui Andre Saraiva ;

Maness, Nicholas J. ;

Lehman, John L. ;

Purtell, Sean E. ;

Hasenkrug, Aaron M. ;

Miller, Jacob C. ;

Dean, Hansi ;

Koff, Wayne C. ;

Hong, Marisa Ailin ;

Martin, Jeffrey N. ;

Deeks, Steven G. ;

Spotts, Gerald E. ;

Pilcher, Christopher D. ;

Hecht, Fredrick M. ;

Kallas, Esper G. ;

Garrison, Keith E. ;

Nixon, Douglas F. .

PLOS ONE, 2012, 7 (06)

[5] Consistent cytotoxic-T-lymphocyte targeting of immunodominant regions in human immunodeficiency virus across multiple ethnicities [J].

Frahm, N ;

Korber, BT ;

Adams, CM ;

Szinger, JJ ;

Draenert, R ;

Addo, MM ;

Feeney, ME ;

Yusim, K ;

Sango, K ;

Brown, NV ;

SenGupta, D ;

Piechocka-Trocha, A ;

Simonis, T ;

Marincola, FM ;

Wurcel, AG ;

Stone, DR ;

Russell, CJ ;

Adolf, P ;

Cohen, D ;

Roach, T ;

StJohn, A ;

Khatri, A ;

Davis, K ;

Mullins, J ;

Goulder, PJR ;

Walker, BD ;

Brander, C .

JOURNAL OF VIROLOGY, 2004, 78 (05) :2187-2200

[6] Extensive HLA class I allele promiscuity among viral CTL epitopes [J].

Frahm, Nicole ;

Yusim, Karina ;

Suscovich, Todd J. ;

Adams, Sharon ;

Sidney, John ;

Hraber, Peter ;

Hewitt, Hannah S. ;

Linde, Caitlyn H. ;

Kavanagh, Daniel G. ;

Woodberry, Tonia ;

Henry, Leah M. ;

Faircloth, Kellie ;

Listgarten, Jennifer ;

Kadie, Carl ;

Jojic, Nebojsa ;

Sango, Kaori ;

Brown, Nancy V. ;

Pae, Eunice ;

Zaman, M. Tauheed ;

Bihl, Florian ;

Khatri, Ashok ;

John, Mina ;

Mallal, Simon ;

Marincola, Francesco M. ;

Walker, Bruce D. ;

Sette, Alessandro ;

Heckerman, David ;

Korber, Bette T. ;

Brander, Christian .

EUROPEAN JOURNAL OF IMMUNOLOGY, 2007, 37 (09) :2419-2433

[7] The Antisense Transcriptomes of Human Cells [J].

He, Yiping ;

Vogelstein, Bert ;

Velculescu, Victor E. ;

Papadopoulos, Nickolas ;

Kinzler, Kenneth W. .

SCIENCE, 2008, 322 (5909) :1855-1857

[8] Leveraging information across HLA alleles/supertypes improves epitope prediction [J].

Heckerman, David ;

Kadie, Carl ;

Listgarten, Jennifer .

JOURNAL OF COMPUTATIONAL BIOLOGY, 2007, 14 (06) :736-746

[9] Poorly soluble peptides can mimic authentic ELISPOT responses [J].

Karlsson, RK ;

Jennes, W ;

Page-Shafer, K ;

Nixon, DF ;

Shacklett, BL .

JOURNAL OF IMMUNOLOGICAL METHODS, 2004, 285 (01) :89-92

[10] Antisense transcription in the mammalian transcriptome [J].

Katayama, S ;

Tomaru, Y ;

Kasukawa, T ;

Waki, K ;

Nakanishi, M ;

Nakamura, M ;

Nishida, H ;

Yap, CC ;

Suzuki, M ;

Kawai, J ;

Suzuki, H ;

Carninci, P ;

Hayashizaki, Y ;

Wells, C ;

Frith, M ;

Ravasi, T ;

Pang, KC ;

Hallinan, J ;

Mattick, J ;

Hume, DA ;

Lipovich, L ;

Batalov, S ;

Engström, PG ;

Mizuno, Y ;

Faghihi, MA ;

Sandelin, A ;

Chalk, AM ;

Mottagui-Tabar, S ;

Liang, Z ;

Lenhard, B ;

Wahlestedt, C .

SCIENCE, 2005, 309 (5740) :1564-1566

← 1 2 →