The use of binding-prediction models to identify M. bovis-specific antigenic peptides for screening assays in bovine tuberculosis

Veterinary Immunology and Immunopathology

Volumn 141, Issue 3-4, 2011, Pages 239-245

  Jones, Gareth J ^a   Bagaini, Francois ^b   Hewinson, R Glyn ^a   Vordermeier, H Martin ^a  

^a VETERINARY LABORATORIES AGENCY   (United Kingdom)

^b NONE   (France)

Author keywords

Binding prediction; Bovine tuberculosis; CD4+ helper T cells; Immunogenic epitopes; MHC class II; Mycobacterium bovis

Indexed keywords

ANTIGEN; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 2;

ANIMAL CELL; ANIMAL EXPERIMENT; ANIMAL MODEL; ANTIGEN DETECTION; ANTIGENICITY; ARTICLE; BOVINE TUBERCULOSIS; CONTROLLED STUDY; HUMAN; IMMUNOGENICITY; MYCOBACTERIUM BOVIS; NONHUMAN; PREDICTION; PROTEIN ANALYSIS; PROTEIN BINDING; PROTEIN DETERMINATION; SCREENING; T LYMPHOCYTE ACTIVATION;

ANIMALS; ANTIGENS, BACTERIAL; BACTERIAL PROTEINS; CATTLE; MODELS, BIOLOGICAL; MODELS, MOLECULAR; MYCOBACTERIUM BOVIS; PROTEIN BINDING; PROTEIN CONFORMATION; SENSITIVITY AND SPECIFICITY; TUBERCULOSIS, BOVINE;

BOS; BOVINAE; MYCOBACTERIUM BOVIS;

EID: 79955617658     PISSN: 01652427     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.vetimm.2011.03.006     Document Type: Article

References (31)

1. Berggren S.A. Field experiment with BCG vaccine in Malawi. Br. Vet. J. 1981, 137:88-96.
2. Boom W.H. The role of T-cell subsets in Mycobacterium tuberculosis infection. Infect. Agents Dis. 1996, 5:73-81.
3. Buddle B.M., Keen D., Thomson A., Jowett G., McCarthy A.R., Heslop J., De Lisle G.W., Stanford J.L., Aldwell F.E. Protection of cattle from bovine tuberculosis by vaccination with BCG by the respiratory or subcutaneous route, but not by vaccination with killed Mycobacterium vaccae. Res. Vet. Sci. 1995, 59:10-16.
4. Cooper A.M., Dalton D.K., Stewart T.A., Griffin J.P., Russell D.G., Orme I.M. Disseminated tuberculosis in interferon gamma gene-disrupted mice. J. Exp. Med. 1993, 178:2243-2247.
5. Dean G.S., Rhodes S.G., Coad M., Whelan A.O., Cockle P.J., Clifford D.J., Hewinson R.G., Vordermeier H.M. Minimum infective dose of Mycobacterium bovis in cattle. Infect. Immun. 2005, 73:6467-6471.
6. DEFRA, 2010, The UK Chief Veterinary Officer's 2009 report on animal health and welfare. http://www.defra.gov.uk/corporate/about/who/cvo/documents/2009report.pdf.
7. Depil S., Morales O., Castelli F.A., Delhem N., Francois V., Georges B., Dufosse F., Morschhauser F., Hammer J., Maillere B., Auriault C., Pancre V. Determination of a HLA II promiscuous peptide cocktail as potential vaccine against EBV latency II malignancies. J. Immunother. 2007, 30:215-226.
8. Ellis S.A., Ballingall K.T. Cattle MHC: evolution in action?. Immunol. Rev. 1999, 167:159-168.
9. Eswar N., Eramian D., Webb B., Shen M.Y., Sali A. Protein structure modeling with modeller. Methods Mol. Biol. 2008, 426:145-159.
10. Fonseca S.G., Coutinho-Silva A., Fonseca L.A., Segurado A.C., Moraes S.L., Rodrigues H., Hammer J., Kallas E.G., Sidney J., Sette A., Kalil J., Cunha-Neto E. Identification of novel consensus CD4 T-cell epitopes from clade B HIV-1 whole genome that are frequently recognized by HIV-1 infected patients. AIDS 2006, 20:2263-2273.
11. Gowthaman U., Agrewala J.N. In silico tools for predicting peptides binding to HLA-class II molecules: more confusion than conclusion. J. Proteome Res. 2008, 7:154-163.
12. Jones G., Willett P., Glen R.C., Leach A.R., Taylor R. Development and validation of a genetic algorithm for flexible docking. J. Mol. Biol. 1997, 267:727-748.
13. Jones G.J., Gordon S.V., Hewinson R.G., Vordermeier H.M. Screening of predicted secreted antigens from Mycobacterium bovis reveals the immunodominance of the ESAT-6 protein family. Infect. Immun. 2010, 78:1326-1332.
14. Lafuente E.M., Reche P.A. Prediction of MHC-peptide binding: a systematic and comprehensive overview. Curr. Pharm. Des. 2009, 15:3209-3220.
15. Lewin H.A., Russell G.C., Glass E.J. Comparative organization and function of the major histocompatibility complex of domesticated cattle. Immunol. Rev. 1999, 167:145-158.
16. Lin H.H., Zhang G.L., Tongchusak S., Reinherz E.L., Brusic V. Evaluation of MHC-II peptide binding prediction servers: applications for vaccine research. BMC Bioinformatics 2008, 9(Suppl. 12):S22.
17. Muixi L., Carrascal M., Alvarez I., Daura X., Marti M., Armengol M.P., Pinilla C., Abian J., Pujol-Borrell R., Jaraquemada D. Thyroglobulin peptides associate in vivo to HLA-DR in autoimmune thyroid glands. J. Immunol. 2008, 181:795-807.
18. Orme I.M., Cooper A.M. Cytokine/chemokine cascades in immunity to tuberculosis. Immunol. Today 1999, 20:307-312.
19. Sidders B., Pirson C., Hogarth P.J., Hewinson R.G., Stoker N.G., Vordermeier H.M., Ewer K. Screening of highly expressed mycobacterial genes identifies Rv3615c as a useful differential diagnostic antigen for the Mycobacterium tuberculosis complex. Infect. Immun. 2008, 76:3932-3939.
20. Singh H., Raghava G.P. ProPred: prediction of HLA-DR binding sites. Bioinformatics 2001, 17:1236-1237.
21. Skinner M.A., Wedlock D.N., de Lisle G.W., Cooke M.M., Tascon R.E., Ferraz J.C., Lowrie D.B., Vordermeier H.M., Hewinson R.G., Buddle B.M. The order of prime-boost vaccination of neonatal calves with Mycobacterium bovis BCG and a DNA vaccine encoding mycobacterial proteins Hsp65, Hsp70, and Apa is not critical for enhancing protection against bovine tuberculosis. Infect. Immun. 2005, 73:4441-4444.
22. Thomas P.D., Dill K.A. An iterative method for extracting energy-like quantities from protein structures. Proc. Natl. Acad. Sci. U.S.A. 1996, 93:11628-11633.
23. Vordermeier H.M., Brown J., Cockle P.J., Franken W.P., Drijfhout J.W., Arend S.M., Ottenhoff T.H., Jahans K., Hewinson R.G. Assessment of cross-reactivity between Mycobacterium bovis and M. kansasii ESAT-6 and CFP-10 at the T-cell epitope level. Clin. Vaccine Immunol. 2007, 14:1203-1209.
24. Vordermeier H.M., Huygen K., Singh M., Hewinson R.G., Xing Z. Immune responses induced in cattle by vaccination with a recombinant adenovirus expressing Mycobacterial antigen 85A and Mycobacterium bovis BCG. Infect. Immun. 2006, 74:1416-1418.
25. Vordermeier H.M., Rhodes S.G., Dean G., Goonetilleke N., Huygen K., Hill A.V., Hewinson R.G., Gilbert S.C. Cellular immune responses induced in cattle by heterologous prime-boost vaccination using recombinant viruses and bacille Calmette-Guerin. Immunology 2004, 112:461-470.
26. Vordermeier H.M., Villarreal-Ramos B., Cockle P.J., McAulay M., Rhodes S.G., Thacker T., Gilbert S.C., McShane H., Hill A.V., Xing Z., Hewinson R.G. Viral booster vaccines improve Mycobacterium bovis BCG-induced protection against bovine tuberculosis. Infect. Immun. 2009, 77:3364-3373.
27. Vordermeier M., Whelan A.O., Hewinson R.G. Recognition of mycobacterial epitopes by T cells across mammalian species and use of a program that predicts human HLA-DR binding peptides to predict bovine epitopes. Infect. Immun. 2003, 71:1980-1987.
28. Waddington F.G., Ellwood D.C. An experiment to challenge the resistance to tuberculosis in B.C.G. vaccinated cattle in Malawi. Br. Vet. J. 1972, 128:541-552.
29. Wang P., Sidney J., Dow C., Mothe B., Sette A., Peters B. A systematic assessment of MHC class II peptide binding predictions and evaluation of a consensus approach. PLoS Comput. Biol. 2008, 4:e1000048.
30. Wang R., Liu L., Lai L., Tang Y. SCORE: A new empirical method for estimating the binding affinity of a protein-ligand complex. J. Mol. Model. 1998, 4:379-394.
31. Wedlock D.N., Denis M., Skinner M.A., Koach J., de Lisle G.W., Vordermeier H.M., Hewinson R.G., van Drunen Littel-van den Hurk S., Babiuk L.A., Hecker R., Buddle B.M. Vaccination of cattle with a CpG oligodeoxynucleotide-formulated mycobacterial protein vaccine and Mycobacterium bovis BCG induces levels of protection against bovine tuberculosis superior to those induced by vaccination with BCG alone. Infect. Immun. 2005, 73:3540-3546.