Computational analysis of data on the functional and structural effects of single nucleotide polymorphisms (SNPs) on inbred ovenbirds

I., Musa S.; O., Yahaya K.; A., Yahaya

doi:10.21608/ejsgs.2023.293600

Computational analysis of data on the functional and structural effects of single nucleotide polymorphisms (SNPs) on inbred ovenbirds

Document Type : Original Article

Authors

¹ Department of Animal Science, Nasarawa State University, Keffi, Shabu- Lafia Campus, Nigeria

² Department of Animal Science and Technology, Federal University of Technology, Owerri, Nigeria

10.21608/ejsgs.2023.293600

Abstract

The objective of this study was to evaluate the functional and structural effects of single nucleotide polymorphism (SNP) on ovine interferon tau using computational methods. Data on ovine interferon was retrieved from data base of National Center for Biotechnology Information ( Gen Bank). Functional effects of substitution of Leucin by Proline at position 26 of interferon protein chain was predicted using Protein Variation Effect Analyzer, Panther server and Poly phen 2 (Polymorphism phenotyping) respectively. Provean score of - 5.828 was obtained, indicating a deleterious effect of the amino acid substitution. Panther server indicated damaging effect of the SNP with Pdel (probability of deleterious effect) of 0.5. Similarly, Poly phen 2 showed damaging effect of the amino acid substitution. Mudpred 2 server indicated loss of sulfation to be the mechanism of structural change. It can be concluded that substitution of Leucin by proline at position 26 of the protein sequence interferon tau resulted in deleterious effect on the functionality of ovine interferon tau. Studies in single nucleotide polymorphism on ovine interferon tau can provide better understanding of biomarkers associated with efficiency of maternal pregnancy recognition in the ovine species.

Keywords