Natural Selection Shapes Variation in Genome-wide Recombination Rate in Drosophila pseudoobscura
Natural Selection Shapes Variation in Genome-wide Recombination Rate in Drosophila pseudoobscura
复制标题
自然选择塑造了果蝇全基因组重组率的变异
DOI：
10.1016/j.cub.2020.03.053
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发表时间：
2020
期刊：
影响因子：
9.2
通讯作者：
Noor, Mohamed A.F.
中科院分区：
文献类型：
--
作者：
Samuk, Kieran;Manzano-Winkler, Brenda;Ritz, Kathryn R.;Noor, Mohamed A.F.
虽然重组被广泛认为是众多进化现象的关键调节因素，但我们对重组率本身如何在物种内变化和进化了解甚少。在这里，我们对来自美国犹他州和亚利桑那州的两个果蝇自然种群的重组率（减数分裂交叉率）进行了全面的研究。我们使用扩增子测序方法在大约 8,000 个个体回交后代（17 个绘图群体，每个群体大约 530 个个体）中获得了高质量的基因型，然后我们对其交叉进行了量化。有趣的是，群体内部和群体之间重组率的变化很大程度上表现为全基因组重组率的差异，而不是局部重组景观的重塑。比较人群后，我们发现犹他州人群的交叉率平均比亚利桑那州人群高 8%，这是一个统计上的显着差异。使用 QST-FST 分析，我们发现这种交叉率差异显着高于中性条件下的预期，表明这种差异可能是由自然选择驱动的。最后，结合使用短读长和长读长全基因组测序，我们发现 200-400 kb 规模的交叉率和结构变异之间没有显着关联。我们的结果表明（1）自然群体中全基因组交叉率存在丰富的变异，（2）在200-400 kb范围内，重组率似乎在全基因组范围内变化很大，而不是在特定区间内变化，（3）群体间重组率的差异可能是局部适应的结果。
While recombination is widely recognized to be a key modulator of numerous evolutionary phenomena, we have a poor understanding of how recombination rate itself varies and evolves within a species. Here, we performed a comprehensive study of recombination rate (rate of meiotic crossing over) in two natural populations ofDrosophila pseudoobscurafrom Utah and Arizona, USA. We used an amplicon sequencing approach to obtain high-quality genotypes in approximately 8,000 individual backcrossed offspring (17 mapping populations with roughly 530 individuals each), for which we then quantified crossovers. Interestingly, variation in recombination rate within and between populations largely manifested as differences in genome-wide recombination rate rather than remodeling of the local recombination landscape. Comparing populations, we discovered individuals from the Utah population displayed on average 8% higher crossover rates than the Arizona population, a statistically significant difference. Using a QST-FSTanalysis, we found that this difference in crossover rate was dramatically higher than expected under neutrality, indicating that this difference may have been driven by natural selection. Finally, using a combination of short- and long-read whole-genome sequencing, we found no significant association between crossover rate and structural variation at the 200–400 kb scale. Our results demonstrate that (1) there is abundant variation in genome-wide crossover rate in natural populations, (2) at the 200–400 kb scale, recombination rate appears to vary largely genome-wide, rather than in specific intervals, and (3) interpopulation differences in recombination rate may be the result of local adaptation.
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