Common sequence polymorphisms shaping genetic diversity in Arabidopsis thaliana
Common sequence polymorphisms shaping genetic diversity in Arabidopsis thaliana
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DOI：
10.1126/science.1138632
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发表时间：
2007-07-20
期刊：
影响因子：
56.9
通讯作者：
Weigel, Detlef
中科院分区：
文献类型：
--
作者：
Clark, Richard M.;Schweikert, Gabriele;Weigel, Detlef
由于不同的进化过程，来自同一物种的个体的基因组依次有所不同。为了检查拟南芥的序列变化的模式和力的序列变化，我们进行了20种不同菌株（登录）的高密度阵列。以中等错误的发现率（FDR）鉴定出超过100万个非冗余的单核苷酸多态性（SNP），与参考基因组序列相对于参考基因组序列的高度相似或已删除相似，与4％的基因组相似。在基因家族中，多态性的模式是高度非随机，基因与具有特殊多态性水平的生物环境相互作用。在染色体尺度上，多态性的区域变化很明显。对最近的选择性扫描的扫描显示了几个候选区域，其中包括一个值得注意的例子，其中几乎所有变化都在500 kilobase窗口中删除。分析我们在较大的加入中描述的多态性将使您能够详细理解塔利亚纳州塔利亚纳州范围范围的序列变化的力。
The genomes of individuals from the same species vary in sequence as a result of different evolutionary processes. To examine the patterns of, and the forces shaping, sequence variation in Arabidopsis thaliana, we performed high-density array resequencing of 20 diverse strains (accessions). More than 1 million nonredundant single-nucleotide polymorphisms (SNPs) were identified at moderate false discovery rates (FDRs), and similar to 4% of the genome was identified as being highly dissimilar or deleted relative to the reference genome sequence. Patterns of polymorphism are highly nonrandom among gene families, with genes mediating interaction with the biotic environment having exceptional polymorphism levels. At the chromosomal scale, regional variation in polymorphism was readily apparent. A scan for recent selective sweeps revealed several candidate regions, including a notable example in which almost all variation was removed in a 500-kilobase window. Analyzing the polymorphisms we describe in larger sets of accessions will enable a detailed understanding of forces shaping population-wide sequence variation in A. thaliana.