Secreted HLA recapitulates the immunopeptidome and allows in-depth coverage of HLA A*02:01 ligands

Molecular Immunology

Volumn 51, Issue 2, 2012, Pages 136-142

  Scull, Katherine E ^a   Dudek, Nadine L ^a   Corbett, Alexandra J ^a   Ramarathinam, Sri H ^a   Gorasia, Dhana G ^a   Williamson, Nicholas A ^a   Purcell, Anthony W ^a  

^a UNIVERSITY OF MELBOURNE   (Australia)

Author keywords

Epitope discovery; Immunopeptidome; Mass spectrometry; Peptide binding motif; Secreted HLA

Indexed keywords

HLA A2 ANTIGEN; LIGAND;

AMINO ACID SEQUENCE; ANTIGEN BINDING; ANTIGEN PRESENTATION; ARTICLE; CELL MATURATION; CELL MIGRATION; CELL SURVIVAL; CONTROLLED STUDY; HLA SYSTEM; INTRACELLULAR SPACE; INTRACELLULAR TRANSPORT; MEMBRANE BINDING; NONHUMAN; PEPTIDE ANALYSIS; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN PROCESSING; PROTEIN SECRETION;

AMINO ACID SEQUENCE; CHROMATOGRAPHY, HIGH PRESSURE LIQUID; HLA-A2 ANTIGEN; HUMANS; LIGANDS; MASS SPECTROMETRY; MOLECULAR SEQUENCE DATA; PROTEIN TRANSPORT; TRANSFECTION;

EID: 84860371053     PISSN: 01615890     EISSN: 18729142     Source Type: Journal    
DOI: 10.1016/j.molimm.2012.02.117     Document Type: Article

References (34)

1. Admon A., Bassani-Sternberg M. The Human Immunopeptidome Project, a suggestion for yet another postgenome next big thing. Mol. Cell. Proteomics 2011, 10. O111 011833.
2. Barnea E., Beer I., Patoka R., Ziv T., Kessler O., Tzehoval E., Eisenbach L., Zavazava N., Admon A. Analysis of endogenous peptides bound by soluble MHC class I molecules: a novel approach for identifying tumor-specific antigens. Eur. J. Immunol. 2002, 32:213-222.
3. Barnstable C.J., Bodmer W.F., Brown G., Galfre G., Milstein C., Williams A.F., Ziegler A. Production of monoclonal antibodies to group A erythrocytes, HLA and other human cell surface antigens - new tools for genetic analysis. Cell 1978, 14:9-20.
4. Bassani-Sternberg M., Barnea E., Beer I., Avivi I., Katz T., Admon A. Soluble plasma HLA peptidome as a potential source for cancer biomarkers. Proc. Natl. Acad. Sci. U.S.A. 2010, 107:18769-18776.
5. Bell M.J., Burrows J.M., Brennan R., Miles J.J., Tellam J., McCluskey J., Rossjohn J., Khanna R., Burrows S.R. The peptide length specificity of some HLA class I alleles is very broad and includes peptides of up to 25 amino acids in length. Mol. Immunol. 2009, 46:1911-1917.
6. Ben Dror L., Barnea E., Beer I., Mann M., Admon A. The HLA-B*2705 peptidome. Arthritis Rheum. 2010, 62:420-429.
7. Berg M., Barnea E., Admon A., Zavazava N. A novel DNA methyltransferase I-derived peptide eluted from soluble HLA-A*0201 induces peptide-specific, tumor-directed cytotoxic T cells. Int. J. Cancer 2004, 112:426-432.
8. Bhatia V.N., Perlman D.H., Costello C.E., McComb M.E. Software tool for researching annotations of proteins: open-source protein annotation software with data visualization. Anal. Chem. 2009, 81:9819-9823.
9. Buchli R., VanGundy R.S., Hickman-Miller H.D., Giberson C.F., Bardet W., Hildebrand W.H. Real-time measurement of in vitro peptide binding to soluble HLA-A*0201 by fluorescence polarization. Biochemistry 2004, 43:14852-14863.
10. Burrows J.M., Bell M.J., Brennan R., Miles J.J., Khanna R., Burrows S.R. Preferential binding of unusually long peptides to MHC class I and its influence on the selection of target peptides for T cell recognition. Mol. Immunol. 2008, 45:1818-1824.
11. Burrows S.R., Rossjohn J., McCluskey J. Have we cut ourselves too short in mapping CTL epitopes?. Trends Immunol. 2006, 27:11-16.
12. Caron E., Charbonneau R., Huppe G., Brochu S., Perreault C. The structure and location of SIMP/STT3B account for its prominent imprint on the MHC I immunopeptidome. Int. Immunol. 2005, 17:1583-1596.
13. Caron E., Vincent K., Fortier M.H., Laverdure J.P., Bramoulle A., Hardy M.P., Voisin G., Roux P.P., Lemieux S., Thibault P., Perreault C. The MHC I immunopeptidome conveys to the cell surface an integrative view of cellular regulation. Mol. Syst. Biol. 2011, 7:533.
14. Engelhard V.H., Bullock T.N., Colella T.A., Sheasley S.L., Mullins D.W. Antigens derived from melanocyte differentiation proteins: self-tolerance, autoimmunity, and use for cancer immunotherapy. Immunol. Rev. 2002, 188:136-146.
15. Falk K., Rötzschke O., Stevanovic S., Jung G., Rammensee H.-G. Allele-specific motifs revealed by sequencing of self-peptides eluted from MHC molecules. Nature 1991, 351:290-296.
16. Harris M.R., Yu Y.Y., Kindle C.S., Hansen T.H., Solheim J.C. Calreticulin and calnexin interact with different protein and glycan determinants during the assembly of MHC class I. J. Immunol. 1998, 160:5404-5409.
17. Hickman H.D., Yewdell J.W. Mining the plasma immunopeptidome for cancer peptides as biomarkers and beyond. Proc. Natl. Acad. Sci. U.S.A. 2010, 107:18747-18748.
18. Lim J.S., Kim S., Lee H.G., Lee K.Y., Kwon T.J., Kim K. Selection of peptides that bind to the HLA-A2.1 molecule by molecular modelling. Mol. Immunol. 1996, 33:221-230.
19. McMurtrey C.P., Lelic A., Piazza P., Chakrabarti A.K., Yablonsky E.J., Wahl A., Bardet W., Eckerd A., Cook R.L., Hess R., Buchli R., Loeb M., Rinaldo C.R., Bramson J., Hildebrand W.H. Epitope discovery in West Nile virus infection: identification and immune recognition of viral epitopes. Proc. Natl. Acad. Sci. U.S.A. 2008, 105:2981-2986.
20. Parham P., Brodsky F.M. Partial purification and some properties of BB7.2. A cytotoxic monoclonal antibody with specificity for HLA-A2 and a variant of HLA-A28. Hum. Immunol. 1981, 3:277-299.
21. Parker K.C., Bednarek M.A., Coligan J.E. Scheme for ranking potential HLA-A2 binding peptides based on independent binding of individual peptide side-chains. J. Immunol. 1994, 152:163-175.
22. Parker K.C., Carreno B.M., Sestak L., Utz U., Biddison W.E., Coligan J.E. Peptide binding to HLA-A2 and HLA-B27 isolated from Escherichia coli. Reconstitution of HLA-A2 and HLA-B27 heavy chain/beta 2-microglobulin complexes requires specific peptides. J. Biol. Chem. 1992, 267:5451-5459.
23. Perreault C. The origin and role of MHC class I-associated self-peptides. Prog. Mol. Biol. Transl. Sci. 2010, 92:41-60.
24. Prilliman K., Lindsey M., Zuo Y., Jackson K.W., Zhang Y., Hildebrand W. Large-scale production of class I bound peptides: assigning a signature to HLA-B*1501. Immunogenetics 1997, 45:379-385.
25. Purcell A.W., Elliott T. Molecular machinations of the MHC-I peptide loading complex. Curr. Opin. Immunol. 2008, 20:75-81.
26. Purcell A.W., Gorman J.J., Garcia-Peydro M., Paradela A., Burrows S.R., Talbo G.H., Laham N., Peh C.A., Reynolds E.C., Lopez De Castro J.A., McCluskey J. Quantitative and qualitative influences of tapasin on the class I peptide repertoire. J. Immunol. 2001, 166:1016-1027.
27. Shilov I.V., Seymour S.L., Patel A.A., Loboda A., Tang W.H., Keating S.P., Hunter C.L., Nuwaysir L.M., Schaeffer D.A. The Paragon Algorithm, a next generation search engine that uses sequence temperature values and feature probabilities to identify peptides from tandem mass spectra. Mol. Cell. Proteomics 2007, 6:1638-1655.
28. Smith M.H., Lam K.S., Hersh E.M., Lebl M., Grimes W.J. Peptide sequences binding to MHC class I proteins. Mol. Immunol. 1994, 31:1431-1437.
29. Storkus W.J., Alexander J., Payne J.A., Dawson J.R., Cresswell P. Reversal of natural killing susceptibility in target cells expressing transfected class I HLA genes. Proc. Natl. Acad. Sci. U.S.A. 1989, 86:2361-2364.
30. Tynan F.E., Reid H.H., Kjer-Nielsen L., Miles J.J., Wilce M.C., Kostenko L., Borg N.A., Williamson N.A., Beddoe T., Purcell A.W., Burrows S.R., McCluskey J., Rossjohn J. A T cell receptor flattens a bulged antigenic peptide presented by a major histocompatibility complex class I molecule. Nat. Immunol. 2007, 8:268-276.
31. Wahl A., Schafer F., Bardet W., Hildebrand W.H. HLA class I molecules reflect an altered host proteome after influenza virus infection. Hum. Immunol. 2010, 71:14-22.
32. Weidanz J.A., Piazza P., Hickman-Miller H., Woodburn D., Nguyen T., Wahl A., Neethling F., Chiriva-Internati M., Rinaldo C.R., Hildebrand W.H. Development and implementation of a direct detection, quantitation and validation system for class I MHC self-peptide epitopes. J. Immunol. Methods 2007, 318:47-58.
33. Wright C.A., Kozik P., Zacharias M., Springer S. Tapasin and other chaperones: models of the MHC class I loading complex. Biol. Chem. 2004, 385:763-778.
34. Zernich D., Purcell A.W., Macdonald W.A., Kjer-Nielsen L., Ely L.K., Laham N., Crockford T., Mifsud A., Tait B.D., Holdsworth R., Brooks A.G., Bottomley S.P., Beddoe T., Peh C.A., Rossjohn J., McCluskey J. Impact of Natural HLA Class I Polymorphism and the Pathway of Antigen Presentation 2004, p. 250.