美国兰布依莱羊、卡塔丁羊和多尔帕羊的遗传多样性

IF 3.6 1区 农林科学 Q1 AGRICULTURE, DAIRY & ANIMAL SCIENCE
Gabrielle M. Becker, Jacob W. Thorne, Joan M. Burke, Ronald M. Lewis, David R. Notter, James L. M. Morgan, Christopher S. Schauer, Whit C. Stewart, R. R. Redden, Brenda M. Murdoch
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引用次数: 0

摘要

管理遗传多样性对维持物种的健康至关重要。遗传多样性丧失导致的同源性过高会对品种的繁殖和生产性能产生不利影响。对遗传多样性的分析有助于确定选择的特征,这些特征可能会导致一个品种或种群在健康、生产和外貌方面具有特定的特征。在这项研究中,对细毛羊(Rambouillet,N = 745)、抗寄生虫羊(Katahdin,N = 581)和耐环境羊(Dorper,N = 265)等性状特征良好的品种进行了近亲繁殖、有效种群规模(Ne)、同源杂合度(ROH)和赖特固定指数(FST)离群值评估,以确定 36,113 个常染色体单核苷酸多态性(SNPs)上的选择差异特征。用 GONe 和 NeEstimator 软件估计,卡塔丁绵羊最近一代的当前 Ne 值最大。兰布依莱羊的 ROH 岛具有最高的保守性,其 6 号染色体上有一个选择特征,在 50% 到 94% 的个体中,有 202 个 SNPs 在 ROH 中被调用。该区域包含 DCAF16、LCORL 和 NCAPG 基因,这些基因以前曾报道过受到选择,并具有与产奶量和生长性状相关的生物学作用。通过对卡塔丁牛与兰布依莱牛和多尔帕牛的 FST 比较发现的离群区包含了在产奶量和乳腺炎抗性或易感性方面具有已知作用的基因,而对兰布依莱牛与卡塔丁牛和多尔帕牛的 FST 比较则发现了与羊毛生长有关的基因,这表明在这些种群中这些性状受到了自然或人工选择的压力。在所有 FST 品种比较中都发现了细胞因子-细胞因子受体相互作用途径中的基因,这表明这些品种之间在控制细胞因子信号转导机制的基因组区域中存在等位基因多样性。在本文中,我们描述了美国具有重要经济价值的不同绵羊品种的选择特征。我们建议对这些特征中包含的基因进行进一步研究,以了解它们与生物性状的相关性,并加深对品种多样性的理解。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Genetic diversity of United States Rambouillet, Katahdin and Dorper sheep
Managing genetic diversity is critically important for maintaining species fitness. Excessive homozygosity caused by the loss of genetic diversity can have detrimental effects on the reproduction and production performance of a breed. Analysis of genetic diversity can facilitate the identification of signatures of selection which may contribute to the specific characteristics regarding the health, production and physical appearance of a breed or population. In this study, breeds with well-characterized traits such as fine wool production (Rambouillet, N = 745), parasite resistance (Katahdin, N = 581) and environmental hardiness (Dorper, N = 265) were evaluated for inbreeding, effective population size (Ne), runs of homozygosity (ROH) and Wright’s fixation index (FST) outlier approach to identify differential signatures of selection at 36,113 autosomal single nucleotide polymorphisms (SNPs). Katahdin sheep had the largest current Ne at the most recent generation estimated with both the GONe and NeEstimator software. The most highly conserved ROH Island was identified in Rambouillet with a signature of selection on chromosome 6 containing 202 SNPs called in an ROH in 50 to 94% of the individuals. This region contained the DCAF16, LCORL and NCAPG genes that have been previously reported to be under selection and have biological roles related to milk production and growth traits. The outlier regions identified through the FST comparisons of Katahdin with Rambouillet and Dorper contained genes with known roles in milk production and mastitis resistance or susceptibility, and the FST comparisons of Rambouillet with Katahdin and Dorper identified genes related to wool growth, suggesting these traits have been under natural or artificial selection pressure in these populations. Genes involved in the cytokine-cytokine receptor interaction pathways were identified in all FST breed comparisons, which indicates the presence of allelic diversity between these breeds in genomic regions controlling cytokine signaling mechanisms. In this paper, we describe signatures of selection within diverse and economically important U.S. sheep breeds. The genes contained within these signatures are proposed for further study to understand their relevance to biological traits and improve understanding of breed diversity.
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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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