A whole genome Bayesian scan for adaptive genetic divergence in West African cattle.
A whole genome Bayesian scan for adaptive genetic divergence in West African cattle.
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DOI：
10.1186/1471-2164-10-550
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发表时间：
2009-11-21
期刊：
影响因子：
4.4
通讯作者：
Foulley JL
中科院分区：
文献类型：
--
作者：
Gautier M;Flori L;Riebler A;Jaffrézic F;Laloé D;Gut I;Moazami-Goudarzi K;Foulley JL
最近，牛从遥远的驯化中心经过几波移徙后定居在西非，使它们的环境条件发生了巨大变化，特别是接触了新的病原体。因此，西非牛种群代表了一个有吸引力的模型，以解开基因组对适应热带条件的反应。本研究的目的是确定适应性选择的足迹，在全基因组水平上，在一个新收集的数据集，包括36,320个SNPs基因型在9个西非牛种群。在对群体结构进行详细分析后，我们通过先前提出的贝叶斯程序进行了SNP分化扫描，该程序包括扩展以提高选择下基因座的检测。基于这些结果，我们确定了53个基因组区域和42个强候选基因。它们的生理功能主要与免疫应答（在强平衡选择下发现的MHC区域、CD 79 A、CXCR 4、DLK 1、RFX 3、SEMA 4A、TICAM 1和TRIM 21）、神经系统（NEUROD 6、OLFM 2、MAGI 1、SEMA 4A和HTR 4）以及皮肤和毛发特性（EDNRB、TRSP 1和KRTAP 8 -1）有关。主要可能的潜在选择压力可能与气候条件有关，但也与宿主对病原体如锥虫（sp）的反应有关。总的来说，这些结果可能为确定适应热带条件，特别是抵抗热带传染病的重要变异开辟道路。
The recent settlement of cattle in West Africa after several waves of migration from remote centres of domestication has imposed dramatic changes in their environmental conditions, in particular through exposure to new pathogens. West African cattle populations thus represent an appealing model to unravel the genome response to adaptation to tropical conditions. The purpose of this study was to identify footprints of adaptive selection at the whole genome level in a newly collected data set comprising 36,320 SNPs genotyped in 9 West African cattle populations. After a detailed analysis of population structure, we performed a scan for SNP differentiation via a previously proposed Bayesian procedure including extensions to improve the detection of loci under selection. Based on these results we identified 53 genomic regions and 42 strong candidate genes. Their physiological functions were mainly related to immune response (MHC region which was found under strong balancing selection, CD79A, CXCR4, DLK1, RFX3, SEMA4A, TICAM1 and TRIM21), nervous system (NEUROD6, OLFM2, MAGI1, SEMA4A and HTR4) and skin and hair properties (EDNRB, TRSP1 and KRTAP8-1). The main possible underlying selective pressures may be related to climatic conditions but also to the host response to pathogens such as Trypanosoma(sp). Overall, these results might open the way towards the identification of important variants involved in adaptation to tropical conditions and in particular to resistance to tropical infectious diseases.
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影响因子：
64.8
作者：
BOWCOCK, AM;RUIZLINARES, A;CAVALLISFORZA, LL
通讯作者：
CAVALLISFORZA, LL
影响因子：
5.8
作者：
Guillot, Gilles;Foll, Matthieu
通讯作者：
Foll, Matthieu
影响因子：
3.1
作者：
Beja-Pereira, A;Alexandrino, P;Cañon, J
通讯作者：
Cañon, J
影响因子：
4.9
作者：
Freeman, AR;Meghen, CM;Bradley, DG
通讯作者：
Bradley, DG
DOI：
10.1073/pnas.0804286105
发表时间：
2008-07-22
影响因子：
11.1
作者：
Contento, Rita Lucia;Molon, Barbara;Viola, Antonella
通讯作者：
Viola, Antonella