Across-country genetic and genomic analyses of foot score traits in American and Australian Angus cattle.

IF 3.6 1区 农林科学 Q1 AGRICULTURE, DAIRY & ANIMAL SCIENCE
Amanda B Alvarenga, Kelli J Retallick, Andre Garcia, Stephen P Miller, Andrew Byrne, Hinayah R Oliveira, Luiz F Brito
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引用次数: 0

Abstract

Background: Hoof structure and health are essential for the welfare and productivity of beef cattle. Therefore, we assessed the genetic and genomic background of foot score traits in American (US) and Australian (AU) Angus cattle and investigated the feasibility of performing genomic evaluations combining data for foot score traits recorded in US and AU Angus cattle. The traits evaluated were foot angle (FA) and claw set (CS). In total, 109,294 and ~ 1.12 million animals had phenotypic and genomic information, respectively. Four sets of analyses were performed: (1) genomic connectedness between US and AU Angus cattle populations and population structure, (2) estimation of genetic parameters, (3) single-step genomic prediction of breeding values, and (4) single-step genome-wide association studies for FA and CS.

Results: There was no clear genetic differentiation between US and AU Angus populations. Similar heritability estimates (FA: 0.22-0.24 and CS: 0.22-0.27) and moderate-to-high genetic correlations between US and AU foot scores (FA: 0.61 and CS: 0.76) were obtained. A joint-genomic prediction using data from both populations outperformed within-country genomic evaluations. A genomic prediction model considering US and AU datasets as a single population performed similarly to the scenario accounting for genotype-by-environment interactions (i.e., multiple-trait model considering US and AU records as different traits), even though the genetic correlations between countries were lower than 0.80. Common significant genomic regions were observed between US and AU for FA and CS. Significant single nucleotide polymorphisms were identified on the Bos taurus (BTA) chromosomes BTA1, BTA5, BTA11, BTA13, BTA19, BTA20, and BTA23. The candidate genes identified were primarily from growth factor gene families, including FGF12 and GDF5, which were previously associated with bone structure and repair.

Conclusions: This study presents comprehensive population structure and genetic and genomic analyses of foot scores in US and AU Angus cattle populations, which are essential for optimizing the implementation of genomic selection for improved foot scores in Angus cattle breeding programs. We have also identified candidate genes associated with foot scores in the largest Angus cattle populations in the world and made recommendations for genomic evaluations for improved foot score traits in the US and AU.

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美国和澳大利亚安格斯牛足迹性状的全国遗传和基因组分析。
背景:蹄的结构和健康对肉牛的福利和生产力至关重要。因此,我们评估了美国(US)和澳大利亚(AU)安格斯牛的足迹特征的遗传和基因组背景,并研究了结合美国和澳大利亚安格斯牛记录的足迹特征数据进行基因组评估的可行性。评价的性状为足角(FA)和爪集(CS)。总计109294和~ 112万只动物分别拥有表型和基因组信息。进行了四组分析:(1)美国和非盟安格斯牛种群和种群结构之间的基因组连通性,(2)遗传参数的估计,(3)育种价值的一步基因组预测,以及(4)FA和CS的一步全基因组关联研究。获得了相似的遗传力估计值(FA:0.22-0.24和CS:0.22-0.27),以及US和AU足部评分之间的中高遗传相关性(FA:0.61和CS:0.76)。使用两个群体的数据进行的联合基因组预测优于国内基因组评估。将US和AU数据集视为单个群体的基因组预测模型与考虑逐基因型环境相互作用的情景(即,将US和AU记录视为不同性状的多性状模型)类似,尽管国家之间的遗传相关性低于0.80。FA和CS在US和AU之间观察到共同的显著基因组区域。在牛牛(BTA)染色体BTA1、BTA5、BTA11、BTA13、BTA19、BTA20和BTA23上发现了显著的单核苷酸多态性。所鉴定的候选基因主要来自生长因子基因家族,包括FGF12和GDF5,它们以前与骨结构和修复有关。结论:本研究提供了美国和非盟安格斯牛种群的综合种群结构以及足部评分的遗传和基因组分析,这对于优化安格斯牛育种计划中改善足部评分的基因组选择至关重要。我们还在世界上最大的安格斯牛种群中确定了与足部评分相关的候选基因,并为美国和非盟改善足部评分特征的基因组评估提出了建议。
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来源期刊
Genetics Selection Evolution
Genetics Selection Evolution 生物-奶制品与动物科学
CiteScore
6.50
自引率
9.80%
发文量
74
审稿时长
1 months
期刊介绍: Genetics Selection Evolution invites basic, applied and methodological content that will aid the current understanding and the utilization of genetic variability in domestic animal species. Although the focus is on domestic animal species, research on other species is invited if it contributes to the understanding of the use of genetic variability in domestic animals. Genetics Selection Evolution publishes results from all levels of study, from the gene to the quantitative trait, from the individual to the population, the breed or the species. Contributions concerning both the biological approach, from molecular genetics to quantitative genetics, as well as the mathematical approach, from population genetics to statistics, are welcome. Specific areas of interest include but are not limited to: gene and QTL identification, mapping and characterization, analysis of new phenotypes, high-throughput SNP data analysis, functional genomics, cytogenetics, genetic diversity of populations and breeds, genetic evaluation, applied and experimental selection, genomic selection, selection efficiency, and statistical methodology for the genetic analysis of phenotypes with quantitative and mixed inheritance.
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