In silico prediction of peptides binding to multiple HLA-DR molecules accurately identifies immunodominant epitopes from gp43 of Paracoccidioides brasiliensis frequently recognized in primary peripheral blood mononuclear cell responses from sensitized individuals

Molecular Medicine

Volumn 9, Issue 9-12, 2003, Pages 209-219

  Iwai, Leo Kei ^a,b,d   Yoshida, Márcia ^c   Sidney, John ^f   Shikanai Yasuda, Maria Aparecida ^c   Goldberg, Anna Carla ^a,b   Juliano, Maria Aparecida ^d   Hammer, Jurgen ^e   Juliano, Luiz ^d   Sette, Alessandro ^f   Kalil, Jorge ^a,b   Travassos, Luiz Rodolpho ^d   Cunha Neto, Edecio ^a,b,c  

^a Heart Institute (InCor)   (Brazil)

^b Millenium Institutes   (Brazil)

^c UNIVERSITY OF SÃO PAULO   (Brazil)

^d FEDERAL UNIVERSITY OF SÃO PAULO   (Brazil)

^e HOFFMANN LA ROCHE INC   (United States)

^f LA JOLLA INSTITUTE FOR ALLERGY AND IMMUNOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EPITOPE; GLYCOPROTEIN; GLYCOPROTEIN GP 43; HLA DR ANTIGEN; SYNTHETIC PEPTIDE; UNCLASSIFIED DRUG;

ACCURACY; ADOLESCENT; ADULT; ALGORITHM; AMINO ACID SEQUENCE; ANTIGEN BINDING; ANTIGEN RECOGNITION; ARTICLE; BINDING ASSAY; CHEMOTHERAPY; COMPUTER MODEL; CONTROLLED STUDY; CORRELATION ANALYSIS; HUMAN; HUMAN CELL; MOLECULAR RECOGNITION; MOLECULE; NUCLEOTIDE SEQUENCE; PARACOCCIDIOIDES BRASILIENSIS; PERIPHERAL BLOOD MONONUCLEAR CELL; PREDICTION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN BINDING; SENSITIZATION; SOUTH AMERICAN BLASTOMYCOSIS; T LYMPHOCYTE;

EID: 3042700384     PISSN: 10761551     EISSN: None     Source Type: Journal    
DOI: 10.1007/bf03402131     Document Type: Article

References (66)

1. Muller GM, Shapira M, Arnon R. (1982) Anti-influenza response achieved by immunization with a synthetic conjugate. Proc. Natl. Acad. Sci. U.S.A. 79:569-73.
2. Taborda CP, Juliano MA, Puccia R, Franco M, Travassos LR. (1998) Mapping of the T-cell epitope in the major 43-kilodalton glycoprotein of Paracoccidioides brasiliensis which induces a Th-1 response protective against fungal infection in BALB/c mice. Infect. Immun. 66:786-93.
3. Smith DJ, King WF, Barnes LA, Peacock Z, Taubman MA. (2003) Immunogenicity and protective immunity induced by synthetic peptides associated with putative immunodominant regions of Streptococcus mutans glucan-binding protein B. Infect. Immun. 71:1179-84.
4. Southwood S et al. (1998) Several common HLA-DR types share largely overlapping peptide binding repertoires. J. Immunol. 160:3363-73.
5. Hunziker IP et al. (2001) Perspectives: toward a peptide-based vaccine against hepatitis C virus. Mol. Immunol. 38:475-84.
6. Tsuji M, Zavala F. (2001) Peptide-based subunit vaccines against pre-erythrocytic stages of malaria parasites. Mol. Immunol. 38:433-42.
7. Ertl HC, Xiang Z. (1996) Novel vaccine approaches. J. Immunol. 156:3579-82.
8. DiMarchi R, Brooke G, Gale C, Cracknell V, Doel T, Mowat N. (1986) Protection of cattle against foot-and-mouth disease by a synthetic peptide. Science 232:639-41.
9. Casal JI et al. (1995) Peptide vaccine against canine parvovirus: identification of two neutralization subsites in the N terminus of VP2 and optimization of the amino acid sequence. J. Virol. 69:7274-7.
10. Taboga O et al. (1997) A large-scale evaluation of peptide vaccines against foot-and-mouth disease: lack of solid protection in cattle and isolation of escape mutants. J. Virol. 71:2606-14.
11. Nargi F et al. (1999) Protection of swine from foot-and-mouth disease with one dose of an all-D retro peptide. Vaccine 17:2888-93.
12. Van Regenmortel MH, Guichard G, Benkirane N, Briand JP, Muller S, Brown F. (1998) The potential of retro-inverso peptides as synthetic vaccines. Dev. Biol. Stand. 92:139-43.
13. Dong XN, Wei K, Liu ZQ, Chen YH. (2002) Candidate peptide vaccine induced protection against classical swine fever virus. Vaccine 21:167-73.
14. Sidney J, Southwood S, Oseroff C, del Guercio MF, Sette A, Grey HM. (1998) The measurement of MHC/peptide interactions by gel infiltration. Curr. Protocols Immunol. 18.3.1-18.3.19.
15. Patarroyo ME et al. (1988) A synthetic vaccine protects humans against challenge with asexual blood stages of Plasmodium falciparum malaria. Nature 332:158-61.
16. + T-cell responses. J. Clin. Oncol. 21:1562-73.
17. Hammer J, Sturniolo T, Sinigaglia F. (1997) HLA class II peptide binding specificity and autoimmunity. Adv. Immunol. 66:67-100.
18. Sturniolo T et al. (1999) Generation of tissue-specific and promiscuous HLA ligand databases using DNA microarrays and virtual HLA class II matrices. Nat. Biotechnol. 17:555-61.
19. Cunha-Neto E. (1999) MHC-restricted antigen presentation and recognition: constraints on gene, recombinant and peptide vaccines in humans. Braz. J. Med. Biol. Res. 32:199-205.
20. Rammensee HG. (1995) Chemistry of peptides associated with MHC class I and class II molecules. Curr. Opin. Immunol. 7:85-96.
21. Rammensee HG, Friede T, Stevanoviic S. (1995) MHC ligands and peptide motifs: first listing. Immunogenetics 41:178-228.
22. Meister GE, Raberts CG, Berzofsky JA, De Groot AS. (1995) Two novel T-cell epitope prediction algorithms based on MHC-binding motifs; comparison of predicted and published epitopes from Mycobacterium tuberculosis and HIV protein sequences. Vaccine 13:581-91.
23. Bian H, Reidhaar-Olson JF, Hammer J. (2003) The use of bioinformatics for identifying class II-restricted T-cell epitopes. Methods 29:299-309.
24. + T-helper cells. Cancer Res. 62:2600-5.
25. de Lalla C, Sturniolo T, Abbruzzese L, Hammer J, Sidoli A, Sinigaglia F, Panina-Bordignon P. (1999) Cutting edge: identification of novel T cell epitopes in Lol p5a by computational prediction. J. Immunol. 163:1725-9.
26. Stassar MJ, Raddrizzani L, Hammer J, Zoller M. (2001) T-helper cell-response to MHC class II-binding peptides of the renal cell carcinoma-associated antigen RAGE-1. Immunobiology 203:743-55.
27. Cochlovius B, Stassar M, Christ O, Raddrizzani L, Hammer J, Mytilineos I, Zoller M. (2000) In vitro and in vivo induction of a Th cell response toward peptides of the melanoma-associated glycoprotein 100 protein selected by the TEPITOPE program. J. Immunol. 165:4731-41.
28. Manici S et al. (1999) Melanoma cells present a MAGE-3 epitope to CD4(+) cytotoxic T cells in association with histocompatibility leukocyte antigen DR11. J. Exp. Med. 189:871-6.
29. + T-cell epitopes on the tumor antigen MAGE-3. Blood 101:1038-44.
30. Panigada M et al. (2002) Identification of a promiscuous T-cell epitope in Mycobacterium tuberculosis Mce proteins. Infect. Immun. 70:79-85.
31. Kruger S, Schroers R, Rooney CM, Gahn B, Chen SY. (2003) Identification of a naturally processed HLA-DR-restricted T-helper epitope in Epstein-Barr virus nuclear antigen type 1. J. Immunother. 26:212-21.
32. Shen L, Schroers R, Hammer J, Huang XF, Chen SY. (2003) Identification of a MHC class-II restricted epitope in carcinoembryonic antigen [online]. Cancer Immunol. Immunother. 18.
33. Schroers R et al. (2003) Identification of MHC class II-restricted T-cell epitopes in prostate-specific membrane antigen. Clin. Cancer Res. 9:3260-71.
34. + Th1- type T-cell peptide epitopes from herpes simplex virus glycoprotein D that confer protective immunity. J. Virol. 77:9463-73.
35. Campi G et al. (2003) CD4(+) T cells from healthy subjects and colon cancer patients recognize a carcinoembryonic antigen-specific immunodominant epitope. Cancer Res. 63:8481-6.
36. Brummer E, Castaneda E, Restrepo A. (1993) Paracoccidioidomycosis: an update. Clin. Microbiol. Rev. 6:89-117.
37. Shikanai-Yasuda MA. (1996) Paracoccioidomycosis. In: Oxford Textbook of Medicine. Weatherall DJ, Ledinghan JGG, Warrell DA (eds.) Oxford Medical Publications, Oxford University Press, Oxford, UK. pp. 814-24.
38. Restrepo A, McEwen JG, Castaneda E. (2001) The habitat of Paracoccidioides brasiliensis: how far from solving the riddle? Med. Mycol. 39:233-41.
39. Mota NG et al. (1985) Correlation between cell-mediated immunity and clinical forms of paracoccidioidomycosis. Trans. R. Soc. Trop. Med. Hyg. 79:765-772.
40. Calich VL, Singer-Vermes LM, Russo M, Vaz CA, Burger E. (1994) Immunogenetics in Paracoccidioidomycosis. In: Paracoccidioidomycosis. Franco M, Lacaz CS, Restrepo A, and Del Negro GM (eds.) CRC Press, Boca Raton, FL. pp. 151-73.
41. Biagioni L, Souza MJ, Chamma LG, Mendes RP, Marques SA, Mota NG, Franco M. (1984) Serology of paracoccidioidomycosis. II. Correlation between class- specific antibodies and clinical forms of the disease. Trans. R. Soc. Trop. Med. Hyg. 78:617-21.
42. Camargo ZP, Unterkircher C, Travassos LR. (1989) Identification of antigenic polypeptides of Paracoccidioides brasiliensis by immunoblotting. J. Med. Vet. Mycol. 27:407-12.
43. Benard G, Mendes-Giannini MJ, Juvenale M, Miranda ET, Duarte AJ. (1997) Immunosuppression in paracoccidioidomycosis: T-cell hyporesponsiveness to two Paracoccidioides brasiliensis glycoproteins that elicit strong humoral immune response. J. Infect. Dis. 175:1263-7.
44. Del Negro GM et al. (2000) Evaluation of tests for antibody response in the follow-up of patients with acute and chronic forms of paracoccidioidomycosis. J. Med. Microbiol. 49:37-46.
45. Souza AR et al. (2000) Anti-idiotypic antibodies in patients with different clinical forms of paracoccidioidomycosis. Clin. Diagn. Lab. Immunol. 7:175-81.
46. Puccia R, Schenkman S, Gorin PA, Travassos LR. (1986) Exocellular components of Paracoccidioides brasiliensis: identification of a specific antigen. Infect. Immun. 53:199-206.
47. Puccia R, Travassos LR. (1991) 43-kilodalton glycoprotein from Paracoccidioides brasiliensis: immunochemical reactions with sera from patients with paracoccidioidomycosis, histoplasmosis, or Jorge Lobo's disease. J. Clin. Microbiol. 29:1610-5.
48. Travassos LR, Taborda CP, Iwai LK, Cunha-Neto E, Puccia R. (2004) The gp43 from Paracoccidioides brasiliensis: A major diagnostic antigen and vaccine candidate. In: The Mycota XII. Human Fungal Pathogens. Domer JE, Kobayashi GS (eds.) Springer-Verlag, Berlin-Heidelberg, pp. 279-96.
49. De Camargo Z, Unterkircher C, Campoy SP, Travassos LR. (1988) Production of Paracoccidioides brasiliensis exoantigens for immunodiffusion tests. J. Clin. Microbiol. 26:2147-51.
50. Taborda CP, Camargo ZP. (1993) Diagnosis of paracoccidioidomycosis by passive haemagglutination assay of antibody using a purified and specific antigen- gp43. J. Med. Vet. Mycol. 31:155-60.
51. Saraiva EC, Altemani A, Franco MF, Unterkircher CS, Camargo ZP. (1996) Paracoccidioides brasiliensis-gp43 used as paracoccidioidin. J. Med. Vet. Mycol. 34:155-61.
52. + memory T-cell subsets in response to antigen or homeostatic cytokines. Blood 100(11):4260-6.
53. Hammer J et al. (1994) High-affinity binding of short peptides to major histocompatibility complex class II molecules by anchor combinations. Proc. Natl. Acad. Sci. U. S. A. 91:4456-60.
54. Atherton E, Sheppard RC. (1989) Solid Phase Peptide Synthesis: A Practical Approach. IRL Press, Oxford, UK. 152 p.
55. King DS, Fields CG, Fields GB. (1990) A cleovage method which minimizes side reactions following Fmoc solid phase peptide synthesis. Int. J. Pept. Protein Res. 36:255-66.
56. Crevat D, Kalil J, Rosa F, Fellous M. (1983) Presence of 2 different epitopes on the human beta 2-microglobulin defined by monoclonal antibodies. Ann. Immunol. (Paris) 134C:31-41.
57. Kalil J, Crevat D, Fellous M, Drouet J, Courouce AM, Ropars C. (1981) Production of monoclonal antibodies against HBs. Ann. Immunol. (Paris) 132C:319-26.
58. Guilherme L et al. (2001). T-cell reactivity against streptococcal antigens in the periphery mirrors reactivity of heart-infiltrating T lymphocytes in rheumatic heart disease patients. Infect. Immun. 69:5345-51.
59. Gustincich S, Manfioletti G, Del Sal G, Schneider C, Carninci P. (1991) A fast method for high-quality genomic DNA extraction from whole human blood. Biotechniques 11:298-300, 302.
60. Bignon JD, Fernandez-Vina MA. (1997) Protocols of the 12th International Histocompatibility Workshop for typing of HLA class II alleles by DNA amplification by the polymerase chain reaction (PCR) and hybridation with sequence specific oligonucleotide probes (SSOP). In: Genetic Diversity of HLA Functional and Medical Implication. Fauchet R, Charron D (eds.) Paris, France, EDK Medical and Scientific International Publisher, pp. 584-95.
61. Olerup O, Zetterquist H. (1992) HLA-DR typing by PCR amplification with sequence-specific primers (PCR-SSP) in 2 hours: an alternative to serological DR typing in clinical practice including donor-recipient matching in cadaveric transplantation. Tissue Antigens 39:225-35.
62. Goldberg AC, Marin ML, Chiarella J, Rosales C, Kalil J. (1997) Brazil normal. In: HLA 1997. Gjertson DW, Terasaki PI (eds.) UCLA Tissue Typing Laboratory, American Society for Histocompatibility and Immunogenetics, Los Angeles, CA. 330 p.
63. Hammer J (1995) New methods to predict MHC-binding sequences within protein antigens. Curr. Opin. Immunol. 7:263-9.
64. Sinigaglia F, Romagnoli P, Guttinger M, Takacs B, Pink JR (1991) Selection of T-cell epitopes and vaccine engineering. Methods Enzymol. 203:370-86.
65. Meloen RH, Langeveld JP, Schaaper WM, Slootstra JW. (2001) Synthetic peptide vaccines: unexpected fulfillment of discarded hope? Biologicals 29:233-6.
66. Alexander J et al. (2002) A decaepitope polypeptide primes for multiple CD8+ IFN-gamma and Th lymphocyte responses: evaluation of multiepitope polypeptides as a mode for vaccine delivery. J. Immunol. 168:6189-98.