The Recombination Landscape in Wild House Mice Inferred Using Population Genomic Data.
The Recombination Landscape in Wild House Mice Inferred Using Population Genomic Data.
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DOI：
10.1534/genetics.117.300063
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发表时间：
2017-09
期刊：
影响因子：
3.3
通讯作者：
Keightley PD
中科院分区：
文献类型：
--
作者：
Booker TR;Ness RW;Keightley PD
描述基因组中重组率的变化对于理解几个进化过程是很重要的。先前对实验室小鼠重组景观的分析表明，不同亚种具有不同的重组热点套房。然而，尚不清楚的是，实验室菌株中发现的热点是否反映了自然种群的热点多样性，或者亚种之间重组率的大范围差异是否保守。在这项研究中，我们构建了东部家鼠自然种群的精细比例重组率图，小家鼠castaneus。我们进行了模拟，以评估存在相位误差时重组率推断的准确性，并使用了一种新的方法来量化相位误差。重组事件的空间分布在我们的castaneus图谱和主要来自于m.m. domesticus的自交系构建的图谱之间呈强正相关。然而，野生鼠的重组热点与野生家鼠菌株双链断裂的位置几乎没有重叠。最后，我们还发现m.m. castaneus的遗传多样性与重组率呈正相关，这与基因组中普遍的自然选择一致。我们的研究表明，重组率的变化在大尺度上是保守的，但在小尺度上并不是很保守。
Characterizing variation in the rate of recombination across the genome is important for understanding several evolutionary processes. Previous analysis of the recombination landscape in laboratory mice has revealed that the different subspecies have different suites of recombination hotspots. It is unknown, however, whether hotspots identified in laboratory strains reflect the hotspot diversity of natural populations or whether broad-scale variation in the rate of recombination is conserved between subspecies. In this study, we constructed fine-scale recombination rate maps for a natural population of the Eastern house mouse, Mus musculus castaneus. We performed simulations to assess the accuracy of recombination rate inference in the presence of phase errors, and we used a novel approach to quantify phase error. The spatial distribution of recombination events is strongly positively correlated between our castaneus map, and a map constructed using inbred lines derived predominantly from M. m. domesticus. Recombination hotspots in wild castaneus show little overlap, however, with the locations of double-strand breaks in wild-derived house mouse strains. Finally, we also find that genetic diversity in M. m. castaneus is positively correlated with the rate of recombination, consistent with pervasive natural selection operating in the genome. Our study suggests that recombination rate variation is conserved at broad scales between house mouse subspecies, but it is not strongly conserved at fine scales.