A narrow window for geographic cline analysis using genomic data: Effects of age, drift, and migration on error rates.
A narrow window for geographic cline analysis using genomic data: Effects of age, drift, and migration on error rates.
复制标题
使用基因组数据进行地理谱系分析的窄窗口：年龄、漂移和迁移对错误率的影响。
DOI：
10.1111/1755-0998.13428
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发表时间：
2021
影响因子：
7.7
通讯作者：
Rosenthal,GilG
中科院分区：
文献类型：
--
作者：
Jofre,GastonI;Rosenthal,GilG
使用基因组和表型数据来扫描离群值是杂交和物种形成研究的支柱。自然杂交区的地理渐变分析被广泛用于通过检测与渗入的基线模式的偏差来识别推定的选择签名。与其他基于离群值的方法一样，人口统计历史可以使中性区域看起来处于选择之下，反之亦然。在这项研究中，我们使用一个向前的时间基于个人的模拟方法来评估不同的进化情景下的地理渐变分析的鲁棒性。我们模拟了多个具有不同年龄、族群规模和迁移率的垫脚石混合区，并在不同类型的选择下进化。我们发现，漂移扭曲渐变群的形状，并增加选择签名的假阳性率。这种影响随着混合区年龄的增加而增加，特别是如果部落之间的迁移率很低。漂移也可以扭曲杂交的有害影响的签名，遗传不相容性，特别是显性不足，容易出现假分型作为适应性渐渗。我们的研究结果表明，地理倾斜是最有用的离群值分析在年轻的混合区与大人口的混合个体。目前的方法可能高估了适应性渐渗，低估了对适应不良基因型的选择。
The use of genomic and phenotypic data to scan for outliers is a mainstay for studies of hybridization and speciation. Geographic cline analysis of natural hybrid zones is widely used to identify putative signatures of selection by detecting deviations from baseline patterns of introgression. As with other outlier‐based approaches, demographic histories can make neutral regions appear to be under selection and vice versa. In this study, we use a forward‐time individual‐based simulation approach to evaluate the robustness of geographic cline analysis under different evolutionary scenarios. We modelled multiple stepping‐stone hybrid zones with distinct age, deme sizes, and migration rates, and evolving under different types of selection. We found that drift distorts cline shapes and increases false positive rates for signatures of selection. This effect increases with hybrid zone age, particularly if migration between demes is low. Drift can also distort the signature of deleterious effects of hybridization, with genetic incompatibilities and particularly underdominance prone to spurious typing as adaptive introgression. Our results suggest that geographic clines are most useful for outlier analysis in young hybrid zones with large populations of hybrid individuals. Current approaches may overestimate adaptive introgression and underestimate selection against maladaptive genotypes.