Journal of Animal Breeding and Genomics (J Anim Breed Genom)
Jae-Young Choi1, Donghyun Shin2, Jeong-Woong Park3, Kyung Hwan Kim4, Jae-Don Oh2,*, Byung-Wook Cho3,*
1Subtropical Livestock Research Institute, National Institute of Animal Science, RDA, Jeju 63242, Korea
2Department of Animal Biotechnology, College of Agricultural and Life Sciences, Chonbuk National University, Jeonju 54896, Republic of Korea
3Department of Animal Science and Biotechnology, Kyungpook National University, SangJu, Republic of Korea
4Department of Animal Science, College of Natural Resources and Life Sciences, Pusan National University, Miryang 627-702, Republic of Korea
Correspondence to Jae-Don Oh, E-mail: oh5ow@naver.com; Byung-Wook Cho, E-mail: bwcho@pusan.ac.kr
Volume 6, Number 3, Pages 99-106, September 2022.
Journal of Animal Breeding and Genomics 2022, 6(3), 99-106. https://doi.org/10.12972/jabng.20220011
Received on July 04, 2022, Revised on September 19, 2022, Accepted on September 19, 2021, Published on September 30, 2022.
Copyright © 2022 Korean Society of Animal Breeding and Genetics.
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0).
The purpose of this study was to analyze the novel single nucleotide polymorphisms (SNPs) of the gap junction protein alpha 4 gene (GJA4) identified in horse muscle RNA-seq and to predict structural changes of proteins by SNPs. In our previous study, we observed differentially expressed genes (DEGs) in Thoroughbreds before and after exercise through RNA-seq analysis. In addition, we conducted an evolutionary analysis using Thoroughbred and Jeju horse re-sequencing data. As a result, we discovered a novel SNP present in GJA4 (LOC22385534 C>G) in the evolutionarily selected gene in the Thoroughbred horse. Transcription factor (TF) binding sites in the 5′-regulatory region of this gene were identified via PROMO. Additionally, bioinformatics tools were used to predict the effect of non-synonymous SNPs (nsSNP) on function and stability. We identified the change of protein structure owing to the amino acid sequence change, which was proline to arginine according to nsSNP data. Our analysis will be useful as a basis for studying genes and SNPs that affect horses.
DEG, GJA4, Protein structure, SNP, Thoroughbred
This work was supported by a 2-Year Research Grant of Pusan National University.
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