Mining the Leishmania genome for novel antigens and vaccine candidates

Proteomics

Volumn 9, Issue 5, 2009, Pages 1293-1301

  Herrera Najera, Carla ^a   Piña Aguilar, Raúl ^a   Xacur Garcia, Fiona ^a   Ramirez Sierra, Maria Jesus ^a   Dumonteil, Eric ^a,b  

^a UNIVERSIDAD AUTÓNOMA DE YUCATÁN   (Mexico)

^b TULANE UNIVERSITY   (United States)

Author keywords

Antigen; Epitope; Infectious diseases; Parasite; Proteome

Indexed keywords

ALANYLARGINYLGLUTAMINYLALANYLSERYLLEUCYLALANYLTHREONYLLEUCINE; ALANYLGLYCYLGLUTAMINYLPROLYLTHREONYLALANYLALANYLTHREONYLLEUCINE; ALANYLGLYCYLPROLYLALANYLSERYLLEUCYLLEUCYLSERYLLEUCINE; ALANYLTYROSYLSERYLVALYLSERYLALANYLSERYLSERYLLEUCINE; EPITOPE; GLUTAMINYLGLYCYLGLUTAMYLALANYLGLUTAMYLALANYLALANYLTHREONYLLEUCINE; GLYCYLGLYCYLGLYCYLGLYCYLSERYLGLYCYLISOLEUCYLLEUCYLGLYCYLTHREONINE; HISTIDYLTYROSYLSERYLTHREONYLVALYLALANYLLYSYLGLUTAMYLLEUCINE; ISOLEUCYLTYROSYLGLUTAMINYLSERYLALANYLALANYLGLYCYLSERYLLEUCINE; LEISHMANIA VACCINE; LEUCYLTYROSYLALANYLTHREONYLVALYLGLUTAMINYLGLUTAMYLGLUTAMINYLLEUCINE; PHENYLALANYLTYROSYLASPARAGINYLSERYLTHREONYLVALYLTHREONYLSERYLLEUCINE; PHENYLALANYLTYROSYLGLUTAMINYLGLUTAMYLALANYLALANYLGLUTAMYLLEUCYLLEUCINE; PROLYLGLYCYLASPARAGINYLALANYLGLYCYLVALYLALANYLSERYLISOLEUCINE; SERYLGLYCYLGLUTAMINYLGLUTAMINYLASPARAGINYLALANYLALANYLTHREONYLLEUCINE; SERYLGLYCYLGLYCYLALANYLALANYLVALYLVALYLVALYLLEUCINE; SERYLGLYCYLHISTIDYLALANYLLYSYLVALYLTHREONYLPHENYLALANYLLEUCINE; SERYLGLYCYLPROLYLALANYLALANYLALANYLVALYLALANYLLEUCINE; SERYLGLYCYLPROLYLALANYLALANYLVALYLPROLYLTHREONYLLEUCINE; SERYLSERYLPROLYLALANYLALANYLALANYLALANYLTHREONYLLEUCINE; SERYLTYROSYLGLUTAMINYLPROLYLVALYLLYSYLASPARAGINYLSERYLLEUCINE; SERYLTYROSYLGLUTAMYLASPARAGINYLTHREONYLGLUTAMYLASPARTYLGLUTAMYLLEUCINE; SERYLTYROSYLGLUTAMYLPROLYLVALYLLEUCYLSERYLSERYLLEUCINE; SERYLTYROSYLGLUTAMYLTHREONYLGLYCYLSERYLSERYLTHREONYLLEUCINE; SERYLTYROSYLGLUTAMYLTHREONYLVALYLLEUCYLALANYLPHENYLALANYLLEUCINE; SERYLTYROSYLSERYLSERYLLEUCYLVALYLSERYLALANYLLEUCINE; SYNTHETIC PEPTIDE; TYROSYLTYROSYLLYSYLALANYLMETHIONYLGLUTAMYLGLUTAMYLSERYLLEUCINE; UNCLASSIFIED DRUG; UNINDEXED DRUG; VALYLTYROSYLASPARAGINYLGLUTAMINYLVALYLGLUTAMYLGLUTAMYLGLUTAMINYLLEUCINE;

ACTIVE IMMUNIZATION; AMINO ACID SEQUENCE; ANIMAL CELL; ANIMAL EXPERIMENT; ANIMAL MODEL; ARTICLE; BAGG ALBINO MOUSE; CD8+ T LYMPHOCYTE; CONTROLLED STUDY; ENZYME ACTIVITY; GENOME ANALYSIS; IMMUNIZATION; IMMUNOGENICITY; INTERFERON PRODUCTION; LEISHMANIA MAJOR; LEISHMANIASIS; MOUSE; NONHUMAN; PRIORITY JOURNAL; PROTEIN EXPRESSION;

ANIMALS; CD8-POSITIVE T-LYMPHOCYTES; COMPUTATIONAL BIOLOGY; EPITOPES, T-LYMPHOCYTE; GENOME; HUMANS; LEISHMANIA MAJOR; MICE; MICE, INBRED BALB C; PEPTIDES; PROTEOME; VACCINATION; VACCINES;

LEISHMANIA MAJOR; MUS;

EID: 63049122408     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.200800533     Document Type: Article

References (46)

1. Desjeux, P., Leishmaniasis. Nat. Rev. Microbiol. 2004, 2, 692.
2. Kedzierski, L., Zhu, Y., Handman, E., Leishmania vaccines: Progress and problems. Parasitology 2006, 133, S87-S112.
3. Sukumaran, B., Madhubala, R., Leishmaniasis: Current status of vaccine development. Curr. Mol. Med. 2004, 4, 667-679.
4. Dumonteil, E., DNA vaccines against protozoan parasites: Opportunities and challenges. J. Biomed. Biotechnol. 2007, 2007, 90520.
5. Ivens, A. C., Peacock, C. S., Worthey, E. A., Murphy, L. et al., The genome of the kinetoplastid parasite, Leishmania major. Science 2005, 309, 436-442.
6. Bhatia, V., Sinha, M., Luxon, B., Garg, N., Utility of the Trypanosoma cruzi sequence database for identification of potential vaccine candidates by in silico and in vitro screening. Infect. Immun. 2004, 72, 6245-6254.
7. Almeida, R., Norrish, A., Levick, M., Vetrie, D. et al., From genomes to vaccines: Leishmania as a model. Philos. Trans R Soc. Lond., B, Biol. Sci. 2002, 357, 5-11.
8. Stober, C. B., Lange, U. G., Roberts, M. T., Gilmartin, B. et al., From genome to vaccines for leishmaniasis: Screening 100 novel vaccine candidates against murine Leishmania major infection. Vaccine 2006, 24, 2602-2616.
9. Barry, M. A., Lai, W. C., Johnston, S. A., Protection against mycoplasma infection using expression-library immunization. Nature 1995, 377, 632-635.
10. Johnston, S. A., Barry, M. A., Genetic to genomic vaccination. Vaccine 1997, 15, 808-809.
11. Barry, M. A., Howell, D. P., Andersson, H. A., Chen, J. L., Singh, R. A., Expression library immunization to discover and improve vaccine antigens. Immunol. Rev. 2004, 199, 68-83.
12. Melby, P. C., Ogden, G. B., Flores, H. A., Zhao, W. et al., Identification of vaccine candidates for experimental visceral leishmaniasis by immunization with sequential fractions of a cDNA expression library. Infect. Immun. 2000, 68, 5595-5602.
13. Stemke-Hale, K., Kaltenboeck, B., DeGraves, F. J., Sykes, K. F. et al., Screening the whole genome of a pathogen in vivo for individual protective antigens. Vaccine 2005, 23, 3016-3025.
14. Alberti, E., Acosta, A., Sarmiento, M. E., Hidalgo, C. et al., Specific cellular and humoral immune response in Balb/c mice immunised with an expression genomic library of Trypanosoma cruzi. Vaccine 1998, 16, 608-612.
15. Fachado, A., Rodriguez, A., Molina, J., Silverio, J. C. et al., Long-term protective immune response elicited by vaccination with an expression genomic library of Toxoplasma gondii. Infect. Immun. 2003, 71, 5407-5411.
16. Piedrafita, D., Xu, D., Hunter, D., Harrison, R. A., Liew, F. Y., Protective immune responses induced by vaccination with an expression genomic library of Leishmania major. J. Immunol. 1999, 163, 1467-1472.
17. Manoutcharian, K., Terrazas, L. I., Gevorkian, G., Govezensky, T., Protection against murine cysticercosis using cDNA expression library immunization. Immunol. Lett. 1998, 62, 131-136.
18. Flower, D. R., Towards in silico prediction of immunogenic epitopes. Trends Immunol. 2003, 24, 667-674.
19. Davies, M. N., Flower, D. R., Harnessing bioinformatics to discover new vaccines. Drug Discov. Today 2007, 12, 389-395.
20. Lundegaard, C., Lund, O., Kesmir, C., Brunak, S., Nielsen, M., Modeling the adaptive immune system: Predictions and simulations. Bioinformatics 2007, 23, 3265-3275.
21. Doolan, D. L., Southwood, S., Freilich, D. A., Sidney, J. et al., Identification of Plasmodium falciparum antigens by antigenic analysis of genomic and proteomic data. Proc. Natl. Acad. Sci. USA 2003, 100, 9952-9957.
22. Andersen, M. H., Tan, L., Sondergaard, I., Zeuthen, J. et al., Poor correspondence between predicted and experimental binding of peptides to class I MHC molecules. Tissue Antigens 2000, 55, 519-531.
23. Brusic, V., Bajic, V. B., Petrovsky, N., Computational methods for prediction of T-cell epitopes - a framework for modelling, testing, and applications. Methods 2004, 34, 436-443.
24. Lundegaard, C., Nielsen, M., Lund, O., The validity of predicted T-cell epitopes. Trends Biotechnol. 2006, 24, 537-538.
25. Larsen, M. V., Lundegaard, C., Lamberth, K., Buus, S. et al., Large-Scale validation of methods for cytotoxic T-lymphocyte epitope prediction. BMC Bioinformatics 2007, 8, 424.
26. Lin, H. H., Ray, S., Tongchusak, S., Reinherz, E. L., Brusic, V., Evaluation of MHC class I peptide binding prediction servers: Applications for vaccine research. BMC immunol. 2008, 9, 8.
27. Wang, M., Lamberth, K., Harndahl, M., Roder, G. et al., CTL epitopes for influenza A including the H5N1 bird flu; genome-, pathogen-, and HLA-wide screening. Vaccine 2007, 25, 2823-2831.
28. Moutaftsi, M., Peters, B., Pasquetto, V., Tscharke, D. C. et al., A consensus epitope prediction approach identifies the breadth of murine T(CD8+)-cell responses to vaccinia virus. Nat. Biotechnol. 2006, 24, 817-819.
29. Belkaid, Y., Von Stebut, E., Mendez, S., Lira, R. et al., CD8+ T cells are required for primary immunity in C57BL/6 mice following low-dose, intradermal challenge with Leishmania major. J. Immunol. 2002, 168, 3992-4000.
30. Reche, P. A., Glutting, J. P., Reinherz, E. L., Prediction of MHC class I binding peptides using profile motifs. Hum. Immunol. 2002, 63, 701-709.
31. Reche, P. A., Glutting, J. P., Zhang, H., Reinherz, E. L., Enhancement to the RANKPEP resource for the prediction of peptide binding to MHC molecules using profiles. Immunogenetics 2004, 56, 405-419.
32. Rammensee, H., Bachmann, J., Emmerich, N. P., Bachor, O. A., Stevanovic, S., SYFPEITHI: Database for MHC ligands and peptide motifs. Immunogenetics 1999, 50, 213-219.
33. Parker, K. C., Bednarek, M. A., Coligan, J. E., Scheme for ranking potential HLA-A2 binding peptides based on indenpendant binding of individual peptide side-chains. J. Immunol. 1994, 152, 163.
34. Singh, H., Raghava, G. P. S., ProPred1: Prediction of promiscuous MHC class-I binding sites. Bioinformatics 2003, 19, 1009-1014.
35. Hakenberg, J., Nussbaum, A. K., Schild, H., Rammensee, H. G. et al., MAPPP: MHC class I antigenic peptide processing prediction. Appl. Bioinformatics 2003, 2, 155-158.
36. Bhasin, M., Raghava, G. P., Prediction of CTL epitopes using QM, SVM and ANN techniques. Vaccine 2004, 22, 3195-3204.
37. Donnes, P., Elofsson, A., Prediction of MHC class I binding peptides, using SVMHC. BMC Bioinformatics 2002, 3, 25.
38. Altuvia, Y., Margalit, H., A structure-based approach for prediction of MHC-binding peptides. Methods 2004, 34, 454-459.
39. Trost, B., Bickis, M., Kusalik, A., Strength in numbers: Achieving greater accuracy in MHC-I binding prediction by combining the results from multiple prediction tools. Immunome. Res. 2007, 3, 5.
40. Aguilar-Be, I., da Silva Zardo, R., Paraguai de Souza, E., Borja-Cabrera, G. P. et al., Cross-protective efficacy of a prophylactic Leishmania donovani DNA vaccine against visceral and cutaneous murine leishmaniasis. Infect. Immun. 2005, 73, 812-819.
41. Rosado-Vallado, M., Mut-Martin, M., Garcia-Miss, M. R., Dumonteil, E., Aluminium phosphate potentiates DNA vaccines against Leishmania mexicana. Vaccine 2005, 23, 5372-5379.
42. Yewdell, J. W., Bennink, J. R., Immunodominance in major histocompatibility complex class I-restricted T lymphocyte responses. Annu. Rev. Immunol. 1999, 17, 51-88.
43. Yewdell, J. W., Reits, E., Neefjes, J., Making sense of mass destruction: Quantitating MHC class I antigen presentation. Nat. Rev. Immunol. 2003, 3, 952-961.
44. Ariel, N., Zvi, A., Makarova, K. S., Chitlaru, T. et al., Genomebased bioinformatic selection of chromosomal Bacillus anthracis putative vaccine candidates coupled with proteomic identification of surface-associated antigens. Infect. Immun. 2003, 71, 4563-4579.
45. Probst, P., Stromberg, E., Ghalib, H. W., Mozel, M. et al., Identification and characterization of T cell-stimulating antigens from Leishmania by CD4 T cell expression cloning. J. Immunol. 2001, 166, 498-505.
46. Peacock, C. S., Seeger, K., Harris, D., Murphy, L. et al., Comparative genomic analysis of three Leishmania species that cause diverse human disease. Nat. Genet. 2007, 39, 839-847.