Quantitative Trait Locus and Genetical Genomics Analysis Identifies Putatively Causal Genes for Fecundity and Brooding in the Chicken
Quantitative Trait Locus and Genetical Genomics Analysis Identifies Putatively Causal Genes for Fecundity and Brooding in the Chicken
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DOI：
10.1534/g3.115.024299
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发表时间：
2016-02-01
影响因子：
2.6
通讯作者：
Wright, Dominic
中科院分区：
文献类型：
--
作者：
Johnsson, Martin;Jonsson, Kenneth B.;Wright, Dominic
繁殖力等生活史特征对进化很重要，因为它们构成了终生健康的组成部分。由于它们的多基因结构，这些性状很难用遗传图谱进行研究。因此，人们对它们的分子基础知之甚少。寻找潜在基因的一种可能方法是绘制中间分子表型图，例如基因表达特征。本研究将家鸡近缘杂交后代的数量性状基因定位与同一品种的表达数量性状基因定位相结合，对鸡的产蛋性能进行了候选数量性状基因的定位。我们在连续两次试验中测量了232只杂交鸡的个体繁殖力，第二次试验的目的是测量育雏率。我们发现了影响卵子繁殖力不同方面的12个基因座。然后，我们将这些基因座的基因组可信区间与同一杂交中来自骨骼和下丘脑的表达数量性状基因座结合起来。鸡蛋基因和表达基因之间的重叠，以及性状-基因表达的相关性，确定了29个候选基因来自骨骼，5个来自下丘脑。候选数量性状基因包括成纤维细胞生长因子1和线粒体核糖体蛋白L42和L32。综上所述，我们在鸡中发现了鸡蛋性状的可能数量性状基因，这些基因可能在鸡的驯化过程中受到调控变异的影响。据我们所知，这些基因代表了鸟类生活史特征的全基因组图谱所确定的一些第一批候选基因。
Life history traits such as fecundity are important to evolution because they make up components of lifetime fitness. Due to their polygenic architectures, such traits are difficult to investigate with genetic mapping. Therefore, little is known about their molecular basis. One possible way toward finding the underlying genes is to map intermediary molecular phenotypes, such as gene expression traits. We set out to map candidate quantitative trait genes for egg fecundity in the chicken by combining quantitative trait locus mapping in an advanced intercross of wild by domestic chickens with expression quantitative trait locus mapping in the same birds. We measured individual egg fecundity in 232 intercross chickens in two consecutive trials, the second one aimed at measuring brooding. We found 12 loci for different aspects of egg fecundity. We then combined the genomic confidence intervals of these loci with expression quantitative trait loci from bone and hypothalamus in the same intercross. Overlaps between egg loci and expression loci, and trait-gene expression correlations identify 29 candidates from bone and five from hypothalamus. The candidate quantitative trait genes include fibroblast growth factor 1, and mitochondrial ribosomal proteins L42 and L32. In summary, we found putative quantitative trait genes for egg traits in the chicken that may have been affected by regulatory variants under chicken domestication. These represent, to the best of our knowledge, some of the first candidate genes identified by genome-wide mapping for life history traits in an avian species.