Molecular and Computational Biology, University of Southern California, Los Angeles, California, USA.
Nat Genet. 2010 Mar;42(3):260-3. doi: 10.1038/ng.515. Epub 2010 Jan 24.
A powerful way to map functional genomic variation and reveal the genetic basis of local adaptation is to associate allele frequency across the genome with environmental conditions. Serpentine soils, characterized by high heavy-metal content and low calcium-to-magnesium ratios, are a classic context for studying adaptation of plants to local soil conditions. To investigate whether Arabidopsis lyrata is locally adapted to serpentine soil, and to map the polymorphisms responsible for such adaptation, we pooled DNA from individuals from serpentine and nonserpentine soils and sequenced each 'gene pool' with the Illumina Genome Analyzer. The polymorphisms that are most strongly associated with soil type are enriched at heavy-metal detoxification and calcium and magnesium transport loci, providing numerous candidate mutations for serpentine adaptation. Sequencing of three candidate loci in the European subspecies of A. lyrata indicates parallel differentiation of the same polymorphism at one locus, confirming ecological adaptation, and different polymorphisms at two other loci, which may indicate convergent evolution.
一种强大的方法来绘制功能基因组变异并揭示遗传基础的局部适应是关联等位基因频率在整个基因组与环境条件。蛇纹石土壤，其特点是高重金属含量和低钙与镁的比例，是一个经典的背景下研究适应植物对当地土壤条件。为了调查是否拟南芥 lyrata 是局部适应蛇纹石土壤，并绘制负责这种适应的多态性，我们汇集 DNA 从个体蛇纹石和非蛇纹石土壤和测序每个'基因库'与 Illumina 基因组分析仪。与土壤类型最强烈相关的多态性在重金属解毒和钙和镁运输基因座富集，提供了许多候选突变的蛇纹石适应。测序三个候选基因座在欧洲亚种的拟南芥表明分化的相同多态性在一个基因座，确认生态适应，和不同的多态性在其他两个基因座，这可能表明趋同进化。
