Dissecting Selective Signatures and Candidate Genes in Grandparent Lines Subject to High Selection Pressure for Broiler Production and in a Local Russian Chicken Breed of Ushanka

被引：0

作者：

Romanov, Michael N. ^{[1
,2
]}

Shakhin, Alexey V. ^{[1
]}

Abdelmanova, Alexandra S. ^{[1
]}

Volkova, Natalia A. ^{[1
]}

Efimov, Dmitry N. ^{[3
]}

Fisinin, Vladimir I. ^{[3
]}

Korshunova, Liudmila G. ^{[3
]}

Anshakov, Dmitry V. ^{[4
]}

Dotsev, Arsen V. ^{[1
]}

Griffin, Darren K. ^{[2
]}

Zinovieva, Natalia A. ^{[1
]}

机构：

[1] L K Ernst Fed Res Ctr Anim Husb, Podolsk 142132, Moscow Oblast, Russia

[2] Univ Kent, Sch Biosci, Canterbury CT2 7NJ, England

[3] All Russian Res & Technol Poultry Inst, Fed State Budget Sci Inst, Fed Sci Ctr, Sergiev Posad 141311, Moscow Oblast, Russia

[4] Russian Acad Sci, All Russian Poultry Res & Technol Inst, Breeding & Genet Ctr Zagorsk Expt Breeding Farm, Fed Res Ctr, Sergiev Posad 141311, Moscow Oblast, Russia

来源：

GENES | 2024年 / 15卷 / 04期

基金：

俄罗斯科学基金会;

关键词：

selection signatures; genomic regions; candidate genes; chicken; SNPs; White Cornish breed; Plymouth Rock White breed; Ushanka breed; genetic diversity; broiler production; GENOME-WIDE ASSOCIATION; ANIMAL QTLDB; DATABASE TOOL; POPULATION; EXPRESSION; HOMOZYGOSITY; RUNS; HETEROZYGOSITY; IDENTIFICATION; POLYMORPHISM;

D O I：

10.3390/genes15040524

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Breeding improvements and quantitative trait genetics are essential to the advancement of broiler production. The impact of artificial selection on genomic architecture and the genetic markers sought remains a key area of research. Here, we used whole-genome resequencing data to analyze the genomic architecture, diversity, and selective sweeps in Cornish White (CRW) and Plymouth Rock White (PRW) transboundary breeds selected for meat production and, comparatively, in an aboriginal Russian breed of Ushanka (USH). Reads were aligned to the reference genome bGalGal1.mat.broiler.GRCg7b and filtered to remove PCR duplicates and low-quality reads using BWA-MEM2 and bcftools software; 12,563,892 SNPs were produced for subsequent analyses. Compared to CRW and PRW, USH had a lower diversity and a higher genetic distinctiveness. Selective sweep regions and corresponding candidate genes were examined based on ZFST, hapFLK, and ROH assessment procedures. Twenty-seven prioritized chicken genes and the functional projection from human homologs suggest their importance for selection signals in the studied breeds. These genes have a functional relationship with such trait categories as body weight, muscles, fat metabolism and deposition, reproduction, etc., mainly aligned with the QTLs in the sweep regions. This information is pivotal for further executing genomic selection to enhance phenotypic traits.

引用

页数：28