<abstract xmlns="http://www.w3.org/1999/xhtml">

<p>The interferon regulatory factor gene family encodes transcription factors with multiple biological functions, which include reproduction, cell differentiation and immunity. Interferon regulatory factor-5 (IRF-5) gene is involved in immune defence against virus, stress response, activation of type I interferon genes, cell differentiation and growth. This experiment was conducted to identify and characterise single nucleotide polymorphisms in exons 3, 4, 5 and 7 of IRF-5 gene in Nigerian local chickens. Exons 3, 4, 5 and 7 of IRF-5 gene were amplified and sequenced. Single nucleotide polymorphisms (SNPs) present in exons 3, 4, 5 and 7 of IRF-5 gene were identified and analysed using Clustal W, DnaSp and SNAP<sup>2</sup> software packages. Four SNPs, rs317511101, rs312902332, rs315149141 and rs739389464, were identified in exon 3 of IRF-5 gene in all the three genotypes. Exon 4 of the gene was conserved while three of the SNPs (rs736423928, 170C>T and rs740736761) identified in exon 7 were shared among the three genotypes. Linkage disequilibrium of 1.00 existed between rs317511101 and rs315149141 polymorphisms identified in exon 3 of normal feathered and frizzle feathered chickens. Mutation rs740736761 identified in exon 7 had the highest polymorphism information content obtainable for any biallelic marker. Most of the SNPs identified in exons 3, 5 and 7 were synonymous and singletons which could not be used for association study. The study concluded that only haplotypes in exons 3 and 7 of IRF-5 gene can be used in marker-assisted selection when improving Nigerian local chickens.</p>
</abstract>

The interferon regulatory factor gene family encodes transcription factors with multiple biological functions, which include reproduction, cell differentiation and immunity. Interferon regulatory factor-5 (IRF-5) gene is involved in immune defence against virus, stress response, activation of type I interferon genes, cell differentiation and growth. This experiment was conducted to identify and characterise single nucleotide polymorphisms in exons 3, 4, 5 and 7 of IRF-5 gene in Nigerian local chickens. Exons 3, 4, 5 and 7 of IRF-5 gene were amplified and sequenced. Single nucleotide polymorphisms (SNPs) present in exons 3, 4, 5 and 7 of IRF-5 gene were identified and analysed using Clustal W, DnaSp and SNAP2 software packages. Four SNPs, rs317511101, rs312902332, rs315149141 and rs739389464, were identified in exon 3 of IRF-5 gene in all the three genotypes. Exon 4 of the gene was conserved while three of the SNPs (rs736423928, 170C>T and rs740736761) identified in exon 7 were shared among the three genotypes. Linkage disequilibrium of 1.00 existed between rs317511101 and rs315149141 polymorphisms identified in exon 3 of normal feathered and frizzle feathered chickens. Mutation rs740736761 identified in exon 7 had the highest polymorphism information content obtainable for any biallelic marker. Most of the SNPs identified in exons 3, 5 and 7 were synonymous and singletons which could not be used for association study. The study concluded that only haplotypes in exons 3 and 7 of IRF-5 gene can be used in marker-assisted selection when improving Nigerian local chickens.

Identification and characterisation of single nucleotide polymorphisms in interferon regulatory factor-5 gene of Nigerian local chickens

Department of Animal Breeding and Genetics

Agricultura Tropica et Subtropica

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

The interferon regulatory factor gene family encodes transcription factors with multiple biological functions, which include reproduction, cell differentiation...

Identification and characterisation of single nucleotide polymorphisms in interferon regulatory factor-5 gene of Nigerian local chickens

Publié en ligne: 30 mars 2021

Pages: 1 - 13

Reçu: 12 févr. 2020

Accepté: 06 févr. 2021

DOI: https://doi.org/10.2478/ats-2021-0001

Mots clés
Exons, heterozygosity, polymorphism information content, singletons, single nucleotide polymorphisms, synonymous mutations

© 2021 Samuel Olutunde Durosaro et al., published by Sciendo

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

Identification and characterisation of single nucleotide polymorphisms in interferon regulatory factor-5 gene of Nigerian local chickens

Publié en ligne: 30 mars 2021

Pages: 1 - 13

Reçu: 12 févr. 2020

Accepté: 06 févr. 2021

DOI: https://doi.org/10.2478/ats-2021-0001

Mots clésExons, heterozygosity, polymorphism information content, singletons, single nucleotide polymorphisms, synonymous mutations

© 2021 Samuel Olutunde Durosaro et al., published by Sciendo

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

Mots clés
Exons, heterozygosity, polymorphism information content, singletons, single nucleotide polymorphisms, synonymous mutations