Prediction and Analysis of Allergenic Epitopes of Tree-Nuts and its Cross-Reactivity

  • Amogh Johri
  • Meenakshi Srivastava
Keywords: Allergens, B-cell epitopes, consensus, cross- reactivity

Abstract

With a whopping 10-25% of the world’s population being affected by it, allergies have become one of the top 10 reasons for visit to primary care physicians. Among this, tree-nut allergies are one of the most common allergies causing food substances. In the contemporary times various computational tools have emerged in order to facilitate time and cost-effective study of food allergens. This does not only aid in fabrication of a cure but also in its prevention as by analyzing for cross-reactivity among different allergens, patients can be advised against a number of possible other food substances which are likely to trigger the same response by their immune system. In the present study, the tool being utilized is EpiPro1.0 which has been developed by the authors in order to carry out accurate and efficient epitope prediction of an allergenic sequence (FASTA format). The tool also utilizes a novel algorithm in order to find the consensus of the results obtained through a number of different web-servers. In the present study, 20 different allergenic sequences from 6 major allergy causing tree-nuts, namely Almonds, Black Walnut, Brazil Nut, Cashew Nut, English Walnut and Hazel Nut, have been analyzed and 326 possible allergy causing epitopes have been predicted. Since, patients suffering from one tree-nut allergy tend to show sensitivity towards other tree-nuts as well, their cross-reactivity has also been studied in order to make accurate predictions regarding possible allergic reactions.

References

[1] D. Chandrika, International Journal of Otorhinolaryngology and Head and Neck Surgery, 3(1): Jan 2017, pp.1-6.
[2] https://www.foodsmatter.com/allergy_intolerance/miscellaneous/artic les/food_allergy_india.html.
[3] A. Johri, Neelabh, M. Srivastava, "A computational study of B-cell epitopes of wheat allergens and identification of its IgE binding residues,” Proceedings of the 12th INDIACom; INDIACom-2018; IEEE Conference ID: 42835, pp. 1095-1099, 2018.
[4] J. V. Ponomarenko, M. H. V. V. Regenmortel, “B-cell epitope prediction,” In: Gu J, Bourne PE, editors. Structural bioinformatics, second ed. John Wiley & Sons, Inc, pp. 849-879, 2009.
[5] http://ailab.ist.psu.edu/bcpred/.
[6] A. Johri, M. Srivastava, unpublished.
[7] https://www.foodallergy.org/common-allergens/tree-nut.
[8] www.ncbi.nlm.nih.gov.
[9] Y. E. Manzalawy, D. Dobbs and V. Honavar, “Predicting linear B‐cell epitopes using string kernels,” Journal of molecular recognition, vol 21, pp 243-255, Jul 2008.
[10] Y. E. Manzalawy, D. Dobbs and V. Honavar, “Predicting flexible length linear B-cell epitopes,” In Computational systems bioinformatics, vol 7, pp. 121-131, NIH Public Access, 2008.
[11] S. Saha and G. P. S. Raghava, “BcePred:Prediction of Continuous B- Cell Epitopes in Antigenic Sequences Using Physico-chemical Properties, ” In G.Nicosia, V.Cutello, P. J. Bentley and J. Timis (Eds.) ICARIS 2004, LNCS 3239, pp. 197-204, Springer,2004.
[12] J. Chen, H. Liu, J. Yang and K. C. Chou, “Prediction of linear B-cell epitopes using amino acid pair antigenicity scale,” Amino acids, vol. 33, pp. 423-428, September 2007.
[13] M. C. Jespersen, B. Peters, M. Nielsen and P. Marcatili, “BepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes,” Nucleic Acids Res, 2017 (Web Server issue).
[14] S. Saha and G. P. S. Raghava, “Prediction of continuous B cell epitopes in an antigen using recurrent neural network,” Proteins: Structure, Function, and Bioinformatics, vol 65, pp. 40-48, Oct 2006.
Published
2019-04-16
How to Cite
Johri, A., & Srivastava, M. (2019). Prediction and Analysis of Allergenic Epitopes of Tree-Nuts and its Cross-Reactivity. Asian Journal For Convergence In Technology (AJCT) ISSN -2350-1146. Retrieved from https://asianssr.org/index.php/ajct/article/view/807
Section
Article

Most read articles by the same author(s)

Obs.: This plugin requires at least one statistics/report plugin to be enabled. If your statistics plugins provide more than one metric then please also select a main metric on the admin's site settings page and/or on the journal manager's settings pages.