In silico prediction of binding of promiscuous peptides to multiple MHC class-II molecules identifies the Th1 cell epitopes from secreted and transmembrane proteins of Schistosoma japonicum in BALB/c mice

Zhao, Ben; Chen, Lei; Zhang, Yan Li; Yang, Jian Mei; Jia, Kan; Sui, Chuan Yu; Yuan, Chun Xiu; Lin, Jingkai; Feng, Xin

doi:10.1016/j.micinf.2011.03.005

Cited by 19 publications

(9 citation statements)

References 46 publications

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“…This in silico analysis was performed using tools designed for mouse MHC alleles. Although there are several reports on antigen processing and presentation in a mouse MHC model (27) and on identification of immunogenic peptides (19,42), this is the first study to investigate MHC binding of peptides by using an in silico model to identify epitopes for use in a cattle and sheep study. It is recognized that the bovine MHC profile in particular is more complex than the mouse MHC profile.…”

Section: Figmentioning

confidence: 99%

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

Gurung

Purdie

Begg

et al. 2012

Clin Vaccine Immunol

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ABSTRACTJohne's disease in ruminants is caused byMycobacterium aviumsubsp.paratuberculosis. Diagnosis ofM. aviumsubsp.paratuberculosisinfection is difficult, especially in the early stages. To date, ideal antigen candidates are not available for efficient immunization or immunodiagnosis. This study reports thein silicoselection and subsequent analysis of epitopes ofM. aviumsubsp.paratuberculosisproteins 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 whenM. aviumsubsp.paratuberculosisis 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-fiveM. aviumsubsp.paratuberculosisproteins that were previously identified as being upregulated underin vitrostress 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 bydesA2], MAP2312c [encoded byfadE19], MAP3651c [encoded byfadE3_2], MAP2872c [encoded byfabG5_2], MAP3523c [encoded byoxcA], MAP0187c [encoded bysodA], 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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Section: Figmentioning

confidence: 99%

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

Gurung

Purdie

Begg

et al. 2012

Clin Vaccine Immunol

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“…This increase is due to the bioinformatic tools which have helped many researchers in several areas 24 , 25 – 29 especially in the identification of adequate vaccine candidates, immunologic information, and presenting important and satisfying analysis. 30 The peptide vaccine design based on immunogenic information enables another important aspect of the reverse vaccinology, being considered an evolving technology, as they reduce the vaccine development time, which lowers their financial cost and eases its projection.…”

Section: Introductionmentioning

confidence: 99%

“… 32 The identification of peptides with antigenic and immunogenic potential is performed by a bioinformatics prediction of epitopes from B and T cells. 27 Therefore, the purpose of this study was to design in silico a new vaccine with several combined epitopes able to induce B cells, leading to the humoral and cellular immune response against C pseudotuberculosis .…”

Section: Introductionmentioning

confidence: 99%

Immune-Informatic Analysis and Design of Peptide Vaccine From Multi-epitopes Against Corynebacterium pseudotuberculosis

Droppa-Almeida

Franceschi

Padilha

2018

Bioinform Biol Insights

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Caseous lymphadenitis (CLA) is a disease caused by Corynebacterium pseudotuberculosis bacteria that affects sheep and goats. The absence of a serologic diagnose is a factor that contributes for the disease dissemination, and due to the formation of granuloma, the treatment is very expensive. Therefore, prophylaxis is the approach with best cost-benefit relation; however, it still lacks an effective vaccine. In this sense, this work seeks to apply bioinformatic tools to design an effective vaccine against CLA, using CP40 protein as standard for the design of immunodominant epitopes, from which a total of 6 sequences were obtained, varying from 10 to 16 amino acid residues. The evaluation of different properties of the vaccines showed that the vaccine is a potent and nonallergenic antigen remaining stable in a wide range of temperatures. The initial tertiary structure of the vaccine was then predicted and a model selected. Later, the process of CP40 protein and TLR2 receptor binding was performed, presenting interaction with this receptor, which plays an important role in the activation of the immune response.

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“…Studies performed by Zhang et al using promiscuous epitopes isolated from S. japonicum by a computational approach demonstrated their ability to stimulate splenocyte proliferation in vitro . In addition, Zhao et al and Zhang et al also confirmed these findings, validating the use of reverse vaccinology associated with cell proliferation in the selection of immunogenic epitopes. However, these works did not allow the subpopulation of proliferative lymphocytes to be distinguished.…”

Section: Resultsmentioning

confidence: 70%

Epitopes rationally selected through computational analyses induce T‐cell proliferation in mice and are recognized by serum from individuals infected with Schistosoma mansoni

Lopes

Oliveira

Coelho

et al. 2017

Biotechnology Progress

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Schistosomiasis is the second leading cause of death due to parasitic diseases in the world. Seeking an alternative for the control of disease, the World Health Organization funded the genome sequencing of the major species related to schistosomiasis to identify potential vaccines and therapeutic targets. Therefore, the aim of this work was to select T and B-cell epitopes from Schistosoma mansoni through computational analyses and evaluate the immunological potential of epitopes in vitro. Extracellular regions of membrane proteins from the Schistosoma mansoni were used to predict promiscuous epitopes with affinity to different human Major Histocompatibility Class II (MHCII) molecules by bioinformatics analysis. The three-dimensional structure of selected epitopes was constructed and used in molecular docking to verify the interaction with murine MHCII H2-IA . In this process, four epitopes were selected and synthesized to assess their ability to stimulate proliferation of CD4 T lymphocytes in mice splenocyte cultures. The results showed that Sm041370 and Sm168240 epitopes induced significant cell proliferation. Additionally, the four epitopes were used as antigens in the Indirect Enzyme-Linked Immunosorbent Assay (ELISA) to assess the recognition by serum from individuals infected with Schistosoma mansoni. Sm140560, Sm168240, and Sm041370 epitopes were recognized by infected individuals IgG antibodies. Therefore, Sm041370 and Sm168240 epitopes that stood out in in silico and in vitro analyses could be promising antigens in schistosomiasis vaccine development or diagnostic kits. © 2017 American Institute of Chemical Engineers Biotechnol. Prog., 33:804-814, 2017.

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In silico prediction of binding of promiscuous peptides to multiple MHC class-II molecules identifies the Th1 cell epitopes from secreted and transmembrane proteins of Schistosoma japonicum in BALB/c mice

Cited by 19 publications

References 46 publications

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 Were Upregulated under Stress Conditions

Immune-Informatic Analysis and Design of Peptide Vaccine From Multi-epitopes Against Corynebacterium pseudotuberculosis

Epitopes rationally selected through computational analyses induce T‐cell proliferation in mice and are recognized by serum from individuals infected with Schistosoma mansoni

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