The genome response to artificial selection: a case study in dairy cattle.
The genome response to artificial selection: a case study in dairy cattle.
复制标题
DOI：
10.1371/journal.pone.0006595
复制
发表时间：
2009-08-12
期刊：
影响因子：
3.7
通讯作者：
Gautier M
中科院分区：
文献类型：
--
作者：
Flori L;Fritz S;Jaffrézic F;Boussaha M;Gut I;Heath S;Foulley JL;Gautier M
在过去的50年里，奶牛品种经历了激烈的人工选择，以改善产奶量性状。在这项研究中，我们利用法国三个主要奶牛品种（Holstein， Normande和montb<s:1> liarde）的42,486个snp进行了全基因组分化扫描，以确定受这种选择影响的主要生理途径和区域。在分析种群结构后，我们在纯漂移模型下估计了每个SNP在三个品种内部和之间的FST。我们进一步考虑了两种不同的策略来评估选择在基因组水平上的影响。首先，使用局部可变带宽核估计器平滑每条染色体上的FST值，可以识别13个高度显著的区域，这些区域受到强和/或最近的正选择的影响。其中一些含有对产奶量性状（GHR）或颜色（MC1R）有强烈影响的因果变异的基因已被报道。为了进一步解释所观察到的选择特征，我们随后将重点放在根据其附近或内部定位的snp的FST值定义的分化基因的注释上。为此，我们进行了全面的网络分析，表明促生长轴和促性腺轴在对选择的反应中起着核心作用。总之，这些观察结果在基因组水平上阐明了高产奶牛产奶量和繁殖性状之间的拮抗作用。
Dairy cattle breeds have been subjected over the last fifty years to intense artificial selection towards improvement of milk production traits. In this study, we performed a whole genome scan for differentiation using 42,486 SNPs in the three major French dairy cattle breeds (Holstein, Normande and Montbéliarde) to identify the main physiological pathways and regions which were affected by this selection. After analyzing the population structure, we estimated FST within and across the three breeds for each SNP under a pure drift model. We further considered two different strategies to evaluate the effect of selection at the genome level. First, smoothing FST values over each chromosome with a local variable bandwidth kernel estimator allowed identifying 13 highly significant regions subjected to strong and/or recent positive selection. Some of them contained genes within which causal variants with strong effect on milk production traits (GHR) or coloration (MC1R) have already been reported. To go further in the interpretation of the observed signatures of selection we subsequently concentrated on the annotation of differentiated genes defined according to the FST value of SNPs localized close or within them. To that end we performed a comprehensive network analysis which suggested a central role of somatotropic and gonadotropic axes in the response to selection. Altogether, these observations shed light on the antagonism, at the genome level, between milk production and reproduction traits in highly producing dairy cows.
登录
查看更多内容
影响因子：
7
作者：
Cohen-Zinder, M;Seroussi, E;Ron, M
通讯作者：
Ron, M
DOI：
10.1073/pnas.0308518100
发表时间：
2004-02-24
影响因子：
11.1
作者：
Grisart, B;Farnir, F;Georges, M
通讯作者：
Georges, M
DOI：
10.1098/rstb.2005.1668
发表时间：
2005-07-29
影响因子：
6.3
作者：
Brotherstone, S;Goddard, M
通讯作者：
Goddard, M
DOI：
10.1111/j.2517-6161.1995.tb02031.x
发表时间：
1995-01-01
影响因子：
5.8
作者：
BENJAMINI, Y;HOCHBERG, Y
通讯作者：
HOCHBERG, Y
影响因子：
3.3
作者：
de Roos, A. P. W.;Hayes, B. J.;Goddard, M. E.
通讯作者：
Goddard, M. E.