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首页> 外文期刊>PLoS Genetics >Recombinational Landscape and Population Genomics of Caenorhabditis elegans
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Recombinational Landscape and Population Genomics of Caenorhabditis elegans

机译：秀丽隐杆线虫的重组景观和种群基因组学。

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Recombination rate and linkage disequilibrium, the latter a function of population genomic processes, are the critical parameters for mapping by linkage and association, and their patterns in Caenorhabditis elegans are poorly understood. We performed high-density SNP genotyping on a large panel of recombinant inbred advanced intercross lines (RIAILs) of C. elegans to characterize the landscape of recombination and, on a panel of wild strains, to characterize population genomic patterns. We confirmed that C. elegans autosomes exhibit discrete domains of nearly constant recombination rate, and we show, for the first time, that the pattern holds for the X chromosome as well. The terminal domains of each chromosome, spanning about 7% of the genome, exhibit effectively no recombination. The RIAILs exhibit a 5.3-fold expansion of the genetic map. With median marker spacing of 61 kb, they are a powerful resource for mapping quantitative trait loci in C. elegans. Among 125 wild isolates, we identified only 41 distinct haplotypes. The patterns of genotypic similarity suggest that some presumed wild strains are laboratory contaminants. The Hawaiian strain, CB4856, exhibits genetic isolation from the remainder of the global population, whose members exhibit ample evidence of intercrossing and recombining. The population effective recombination rate, estimated from the pattern of linkage disequilibrium, is correlated with the estimated meiotic recombination rate, but its magnitude implies that the effective rate of outcrossing is extremely low, corroborating reports of selection against recombinant genotypes. Despite the low population, effective recombination rate and extensive linkage disequilibrium among chromosomes, which are techniques that account for background levels of genomic similarity, permit association mapping in wild C. elegans strains.
机译：重组率和连锁不平衡，后者是种群基因组过程的函数，是通过连锁和缔合进行作图的关键参数，人们对秀丽隐杆线虫的模式知之甚少。我们对秀丽隐杆线虫的一大批重组自交先进交配系（RIAILs）进行了高密度SNP基因分型，以表征重组景观，并在一组野生菌株上，表征了种群基因组模式。我们证实秀丽隐杆线虫常染色体具有几乎恒定的重组率的离散域，并且我们首次显示该模式也适用于X染色体。每个染色体的末端结构域跨越基因组的大约7％，实际上没有重组。 RIAILs展示了5.3倍的遗传图谱扩展。它们的中位标记间距为61 kb，是绘制秀丽隐杆线虫定量性状基因座的有力资源。在125种野生分离株中，我们仅鉴定出41种不同的单倍型。基因型相似性模式表明某些推测的野生菌株是实验室污染物。夏威夷毒株CB4856与全球其余人口表现出遗传隔离，其其余成员表现出充分的交叉和重组证据。从连锁不平衡的模式估计的群体有效重组率与估计的减数分裂重组率相关，但是其幅度暗示异型杂交的有效率极低，这证实了针对重组基因型选择的报道。尽管人口少，但染色体之间的有效重组率和广泛的连锁不平衡（这是解释基因组相似性背景水平的技术）允许在野生秀丽隐杆线虫菌株中进行关联作图。

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