The role of parasite-driven selection in shaping landscape genomic structure in red grouse (Lagopus lagopus scotica).
The role of parasite-driven selection in shaping landscape genomic structure in red grouse (Lagopus lagopus scotica).
复制标题
寄生虫驱动的选择在塑造红松鸡（Lagopus lagopus scotica）景观基因组结构中的作用。
DOI：
10.1111/mec.13473
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发表时间：
2016
影响因子：
4.9
通讯作者：
Wenzel MA
中科院分区：
文献类型：
--
作者：
Wenzel MA
景观基因组学有望为中性和适应性过程如何塑造群体内部和群体之间的全基因组变异提供新的见解。然而，很少有人强调检查源自全基因组关联（GWAS）等方法的基于个体的表型-基因型关系是否表现为景观环境中群体水平的选择特征。随着个体水平的模式被高水平的基因流和复杂的表型或环境异质性稀释，这两者可能是不可调和的。我们通过一个案例研究来说明这个问题，该案例研究了高度流行的胃肠道线虫Trichostrongylus tenuisin在塑造红松鸡（Lagopus lagopus scotica）选择基因组特征中的作用。涉及 384 个 SNP 的个体水平 GWAS 先前已识别出 5 个可以解释 T 变异的 SNP。负担。在这里，我们检查这些相同的 SNP 是否显示 T. 21 个具有异质寄生虫压力的地点的小规模景观中的微小负担和遗传结构。此外，我们使用离群值分析来识别显示方向选择特征的适应性 SNP，并将多位点中性和适应性遗传结构的群体和个体水平模式与 T 相关联。负担。用于寄生虫驱动选择的 5 个候选 SNP 均不与 T.人口层面上的负担，也不是定向选择下的负担。同样，在被确定为定向选择候选的 SNP 中，没有证据表明寄生虫驱动的选择。我们在红鸡生态学的背景下讨论这些结果，并强调利用景观基因组学方法来识别选择特征的更广泛的后果。
Landscape genomics promises to provide novel insights into how neutral and adaptive processes shape genome‐wide variation within and among populations. However, there has been little emphasis on examining whether individual‐based phenotype–genotype relationships derived from approaches such as genome‐wide association (GWAS) manifest themselves as a population‐level signature of selection in a landscape context. The two may prove irreconcilable as individual‐level patterns become diluted by high levels of gene flow and complex phenotypic or environmental heterogeneity. We illustrate this issue with a case study that examines the role of the highly prevalent gastrointestinal nematodeTrichostrongylus tenuisin shaping genomic signatures of selection in red grouse (Lagopus lagopus scotica). Individual‐level GWAS involving 384 SNPs has previously identified five SNPs that explain variation inT. tenuisburden. Here, we examine whether these same SNPs display population‐level relationships betweenT. tenuisburden and genetic structure across a small‐scale landscape of 21 sites with heterogeneous parasite pressure. Moreover, we identify adaptive SNPs showing signatures of directional selection using outlier analysis and relate population‐ and individual‐level patterns of multilocus neutral and adaptive genetic structure toT. tenuisburden. The five candidate SNPs for parasite‐driven selection were neither associated withT. tenuisburden on a population level, nor under directional selection. Similarly, there was no evidence of parasite‐driven selection in SNPs identified as candidates for directional selection. We discuss these results in the context of red grouse ecology and highlight the broader consequences for the utility of landscape genomics approaches for identifying signatures of selection.