Application of selection mapping to identify genomic regions associated with dairy production in sheep.
Application of selection mapping to identify genomic regions associated with dairy production in sheep.
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DOI：
10.1371/journal.pone.0094623
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发表时间：
2014
期刊：
影响因子：
3.7
通讯作者：
Wiener P
中科院分区：
文献类型：
--
作者：
Gutiérrez-Gil B;Arranz JJ;Pong-Wong R;García-Gámez E;Kijas J;Wiener P
在欧洲，特别是在地中海地区，绵羊传统上一直被作为双重用途物种进行开发，其收入来自肉和奶。饲养方法的现代化和以产奶为重点的育种计划的建立导致了“乳品品种”的发展。这项研究通过寻找不同欧洲乳制品品种中常见的区域，调查了与绵羊乳制品生产特别相关的选择性扫描。为此，我们使用两种方法对欧洲奶牛和非奶牛绵羊品种中覆盖绵羊常染色体的 44,545 个 SNP 标记的基因型进行了分析：(i) 鉴定在每个奶牛品种和密切相关的非奶牛品种之间显示极端遗传差异的基因组区域，以及 (ii) 使用两种方法鉴定奶牛品种中变异（杂合性）减少的区域。通过两种方法（遗传分化和至少一种基于杂合性的分析）在至少两个品种（品种对）中检测到的区域被标记为核心候选收敛区域，并进一步研究候选基因。按照这种方法，检测到了六个区域。对于其中一些基因，已提出了强候选基因（例如 ABCG2、SPP1），而其他一些基因根据其与绵羊和牛乳品性状的关联而指定为候选基因（例如 LALBA、DGAT1A），但与可检测的扫描信号无关。所鉴定的区域很少与先前在绵羊中报道的 QTL 一致，尽管其中许多区域与牛的直系同源区域相对应，其中乳制品性状的 QTL 已被鉴定。由于与牛相比，绵羊的 QTL 研究数量有限，因此结果说明了选择作图在识别与绵羊乳制品性状相关的基因组区域方面的潜在价值。
In Europe, especially in Mediterranean areas, the sheep has been traditionally exploited as a dual purpose species, with income from both meat and milk. Modernization of husbandry methods and the establishment of breeding schemes focused on milk production have led to the development of “dairy breeds.” This study investigated selective sweeps specifically related to dairy production in sheep by searching for regions commonly identified in different European dairy breeds. With this aim, genotypes from 44,545 SNP markers covering the sheep autosomes were analysed in both European dairy and non-dairy sheep breeds using two approaches: (i) identification of genomic regions showing extreme genetic differentiation between each dairy breed and a closely related non-dairy breed, and (ii) identification of regions with reduced variation (heterozygosity) in the dairy breeds using two methods. Regions detected in at least two breeds (breed pairs) by the two approaches (genetic differentiation and at least one of the heterozygosity-based analyses) were labeled as core candidate convergence regions and further investigated for candidate genes. Following this approach six regions were detected. For some of them, strong candidate genes have been proposed (e.g. ABCG2, SPP1), whereas some other genes designated as candidates based on their association with sheep and cattle dairy traits (e.g. LALBA, DGAT1A) were not associated with a detectable sweep signal. Few of the identified regions were coincident with QTL previously reported in sheep, although many of them corresponded to orthologous regions in cattle where QTL for dairy traits have been identified. Due to the limited number of QTL studies reported in sheep compared with cattle, the results illustrate the potential value of selection mapping to identify genomic regions associated with dairy traits in sheep.
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影响因子：
9.8
作者：
Boyko AR;Quignon P;Li L;Schoenebeck JJ;Degenhardt JD;Lohmueller KE;Zhao K;Brisbin A;Parker HG;vonHoldt BM;Cargill M;Auton A;Reynolds A;Elkahloun AG;Castelhano M;Mosher DS;Sutter NB;Johnson GS;Novembre J;Hubisz MJ;Siepel A;Wayne RK;Bustamante CD;Ostrander EA
通讯作者：
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影响因子：
3.7
作者：
García-Gámez E;Gutiérrez-Gil B;Sahana G;Sánchez JP;Bayón Y;Arranz JJ
通讯作者：
Arranz JJ
影响因子：
23.9
作者：
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通讯作者：
Visvader, Jane E.
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4.4
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