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In Silico Identification of Epitopes in Mycobacterium avium subsp. paratuberculosis Proteins That Were Upregulated under Stress Conditions

In Silico Identification of Epitopes in Mycobacterium avium subsp. paratuberculosis Proteins That... In Silico Identification of Epitopes in Mycobacterium avium subsp. paratuberculosis Proteins That Were Upregulated under Stress Conditions Ratna B. Gurung a , b , Auriol C. Purdie a , Douglas J. Begg a and Richard J. Whittington a a Faculty of Veterinary Science, University of Sydney, Camden, NSW, Australia b Department of Livestock, Ministry of Agriculture and Forests, Thimphu, Bhutan ABSTRACT Johne's disease in ruminants is caused by Mycobacterium avium subsp. paratuberculosis . Diagnosis of M. avium subsp. paratuberculosis infection is difficult, especially in the early stages. To date, ideal antigen candidates are not available for efficient immunization or immunodiagnosis. This study reports the in silico selection and subsequent analysis of epitopes of M. avium subsp. paratuberculosis proteins that were found to be upregulated under stress conditions as a means to identify immunogenic candidate proteins. Previous studies have reported differential regulation of proteins when M. avium subsp. paratuberculosis is exposed to stressors which induce a response similar to dormancy. Dormancy may be involved in evading host defense mechanisms, and the host may also mount an immune response against these proteins. Twenty-five M. avium subsp. paratuberculosis proteins that were previously identified as being upregulated under in vitro stress conditions were analyzed for B and T cell epitopes by use of the prediction tools at the Immune Epitope Database and Analysis Resource. Major histocompatibility complex class I T cell epitopes were predicted using an artificial neural network method, and class II T cell epitopes were predicted using the consensus method. Conformational B cell epitopes were predicted from the relevant three-dimensional structure template for each protein. Based on the greatest number of predicted epitopes, eight proteins (MAP2698c (encoded by desA2 ), MAP2312c (encoded by fadE19 ), MAP3651c (encoded by fadE3_2 ), MAP2872c (encoded by fabG5_2 ), MAP3523c (encoded by oxcA ), MAP0187c (encoded by sodA ), and the hypothetical proteins MAP3567 and MAP1168c) were identified as potential candidates for study of antibody- and cell-mediated immune responses within infected hosts. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Clinical and Vaccine Immunology American Society For Microbiology

In Silico Identification of Epitopes in Mycobacterium avium subsp. paratuberculosis Proteins That Were Upregulated under Stress Conditions

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In Silico Identification of Epitopes in Mycobacterium avium subsp. paratuberculosis Proteins That Were Upregulated under Stress Conditions

Ratna B. Gurung , Auriol C. Purdie , Douglas J. Begg , and Richard J. Whittington
Clinical and Vaccine Immunology , Volume 19 (6): 855 – Jun 1, 2012

Abstract

In Silico Identification of Epitopes in Mycobacterium avium subsp. paratuberculosis Proteins That Were Upregulated under Stress Conditions Ratna B. Gurung a , b , Auriol C. Purdie a , Douglas J. Begg a and Richard J. Whittington a a Faculty of Veterinary Science, University of Sydney, Camden, NSW, Australia b Department of Livestock, Ministry of Agriculture and Forests, Thimphu, Bhutan ABSTRACT Johne's disease in ruminants is caused by Mycobacterium avium subsp. paratuberculosis . Diagnosis of M. avium subsp. paratuberculosis infection is difficult, especially in the early stages. To date, ideal antigen candidates are not available for efficient immunization or immunodiagnosis. This study reports the in silico selection and subsequent analysis of epitopes of M. avium subsp. paratuberculosis proteins that were found to be upregulated under stress conditions as a means to identify immunogenic candidate proteins. Previous studies have reported differential regulation of proteins when M. avium subsp. paratuberculosis is exposed to stressors which induce a response similar to dormancy. Dormancy may be involved in evading host defense mechanisms, and the host may also mount an immune response against these proteins. Twenty-five M. avium subsp. paratuberculosis proteins that were previously identified as being upregulated under in vitro stress conditions were analyzed for B and T cell epitopes by use of the prediction tools at the Immune Epitope Database and Analysis Resource. Major histocompatibility complex class I T cell epitopes were predicted using an artificial neural network method, and class II T cell epitopes were predicted using the consensus method. Conformational B cell epitopes were predicted from the relevant three-dimensional structure template for each protein. Based on the greatest number of predicted epitopes, eight proteins (MAP2698c (encoded by desA2 ), MAP2312c (encoded by fadE19 ), MAP3651c (encoded by fadE3_2 ), MAP2872c (encoded by fabG5_2 ), MAP3523c (encoded by oxcA ), MAP0187c (encoded by sodA ), and the hypothetical proteins MAP3567 and MAP1168c) were identified as potential candidates for study of antibody- and cell-mediated immune responses within infected hosts.

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Publisher
American Society For Microbiology
Copyright
Copyright © 2012 by the American society for Microbiology.
ISSN
1556-6811
eISSN
1556-679X
DOI
10.1128/CVI.00114-12
pmid
22496492
Publisher site
See Article on Publisher Site

Abstract

In Silico Identification of Epitopes in Mycobacterium avium subsp. paratuberculosis Proteins That Were Upregulated under Stress Conditions Ratna B. Gurung a , b , Auriol C. Purdie a , Douglas J. Begg a and Richard J. Whittington a a Faculty of Veterinary Science, University of Sydney, Camden, NSW, Australia b Department of Livestock, Ministry of Agriculture and Forests, Thimphu, Bhutan ABSTRACT Johne's disease in ruminants is caused by Mycobacterium avium subsp. paratuberculosis . Diagnosis of M. avium subsp. paratuberculosis infection is difficult, especially in the early stages. To date, ideal antigen candidates are not available for efficient immunization or immunodiagnosis. This study reports the in silico selection and subsequent analysis of epitopes of M. avium subsp. paratuberculosis proteins that were found to be upregulated under stress conditions as a means to identify immunogenic candidate proteins. Previous studies have reported differential regulation of proteins when M. avium subsp. paratuberculosis is exposed to stressors which induce a response similar to dormancy. Dormancy may be involved in evading host defense mechanisms, and the host may also mount an immune response against these proteins. Twenty-five M. avium subsp. paratuberculosis proteins that were previously identified as being upregulated under in vitro stress conditions were analyzed for B and T cell epitopes by use of the prediction tools at the Immune Epitope Database and Analysis Resource. Major histocompatibility complex class I T cell epitopes were predicted using an artificial neural network method, and class II T cell epitopes were predicted using the consensus method. Conformational B cell epitopes were predicted from the relevant three-dimensional structure template for each protein. Based on the greatest number of predicted epitopes, eight proteins (MAP2698c (encoded by desA2 ), MAP2312c (encoded by fadE19 ), MAP3651c (encoded by fadE3_2 ), MAP2872c (encoded by fabG5_2 ), MAP3523c (encoded by oxcA ), MAP0187c (encoded by sodA ), and the hypothetical proteins MAP3567 and MAP1168c) were identified as potential candidates for study of antibody- and cell-mediated immune responses within infected hosts.

Journal

Clinical and Vaccine Immunology – American Society For Microbiology

Published: Jun 1, 2012

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