Assessment of Genetic Relationship and Application of Computational Algorithm to Assess Functionality of Non-Synonymous Substitutions in DQA2 Gene of Cattle, Sheep and Goats

Abstract

The major histocompatibility complex (MHC) is a fundamental part of the immune system in nearly all vertebrates. DQA2 is a member of the MHC complex and an important candidate gene involved in susceptibility/resistance to various diseases. Therefore, the present study aimed at investigating computationally molecular genetic variation of DQA2 gene of cattle, sheep and goats especially on its evolution and differentiation within and among species as well as the attendant effects of the polymorphism on the function of DQA2 gene. A total of thirty three DQA2 nucleotide sequences comprising cattle (10), sheep (12) and goats (11) were retrieved from the GenBank. Forty seven amino acid substitutions of the wild type alleles located in the putative peptide coding region of caprine DQA2 alleles were obtained from the alignment of deduced amino acid sequences of goats. Out of these, eleven amino acid substitutions (H14L, H14R, L34M, E35L, G56S, G56R, 161V, A62E, D69Q, T72N and T72G) were returned neutral; an indication that they did not impair protein function. The Expected Accuracy (EA) ranged from 53% 87%. For sheep, sixteen amino acid substitutions (A11P, A11T, A11G, A11M, L14S, L14T, V27L, V27S, G35S, S46T, D55E, L57T, L57A, L57G, K65Q and V68I) appeared beneficial while the rest forty seven appeared harmCorresponding authors.

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Cite this paper

@inproceedings{Ugbo2015AssessmentOG, title={Assessment of Genetic Relationship and Application of Computational Algorithm to Assess Functionality of Non-Synonymous Substitutions in DQA2 Gene of Cattle, Sheep and Goats}, author={Steven B. Ugbo and Abdulmojeed Yakubu and Jude N. Omeje and Bwaseh S. Bibinu and Ibrahim S. Musa and Joseph O. Egahi and N . I . Dim}, year={2015} }