Patterns of Population Structure and Environmental Associations to Aridity Across the Range of Loblolly Pine (Pinus taeda L., Pinaceae)
Patterns of Population Structure and Environmental Associations to Aridity Across the Range of Loblolly Pine (Pinus taeda L., Pinaceae)
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DOI：
10.1534/genetics.110.115543
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发表时间：
2010-07-01
期刊：
影响因子：
3.3
通讯作者：
Neale, David. B.
中科院分区：
文献类型：
--
作者：
Eckert, Andrew J.;van Heerwaarden, Joost;Neale, David. B.
森林树木的自然种群表现出惊人的表型适应不同的环境梯度，从而使他们有吸引力的主题为生态相关的表型基因的研究。在这里，我们使用一个全基因组的数据集的单核苷酸多态性基因分型的3059个功能基因研究模式的人口结构，并确定与干旱的火炬松（火炬松L.）的自然范围内的位点。总体格局的人口结构，推断使用主成分和贝叶斯聚类分析，是一致的三个遗传集群可能导致的扩展更新世避难所位于墨西哥和佛罗里达。关联分析的一个新应用，消除了共同祖先的遗传和环境变异之间的相关性的混淆影响，确定了五个与干旱相关的位点。这些位点主要参与温度和干旱的非生物胁迫响应。一组独特的24个基因座被确定为FST离群值的基础上确定的遗传簇之前和之后的会计扩展更新世避难所。这些位点参与了多种生理过程。非重叠的基因座组的识别突出了使用这两种方法所隐含的根本差异，并提出了一种多元但互补的方法来识别生态相关表型的基因。
Natural populations of forest trees exhibit striking phenotypic adaptations to diverse environmental gradients, thereby making them appealing subjects for the study of genes underlying ecologically relevant phenotypes. Here, we use a genome-wide data set of single nucleotide polymorphisms genotyped across 3059 functional genes to study patterns of population structure and identify loci associated with aridity across the natural range of loblolly pine (Pinus taeda L.). Overall patterns of population structure, as inferred using principal components and Bayesian cluster analyses, were consistent with three genetic clusters likely resulting from expansions out of Pleistocene refugia located in Mexico and Florida. A novel application of association analysis, which removes the confounding effects of shared ancestry on correlations between genetic and environmental variation, identified five loci correlated with aridity. These loci were primarily involved with abiotic stress response to temperature and drought. A unique set of 24 loci was identified as FST outliers on the basis of the genetic clusters identified previously and after accounting for expansions out of Pleistocene refugia. These loci were involved with a diversity of physiological processes. Identification of nonoverlapping sets of loci highlights the fundamental differences implicit in the use of either method and suggests a pluralistic, yet complementary, approach to the identification of genes underlying ecologically relevant phenotypes.