内向的总结测试对评估跨血统的变化高度敏感
Lauren E Frankel1, Cécile Ané1,2
1Department of Botany, University of Wisconsin-Madison, Madison, WI 53706, USA.
Systematic biology
|September 12, 2023
概括
进化速率变化在使用常见总结统计测试检测杂交时显著增加了假阳性. 这些方法可能需要在不同的遗传学研究中重新评估准确性.
科学领域:
- 进化生物学是进化的生物学.
- 基因组学就是基因组学.
- 人类遗传学 是一个学科.
背景情况:
- 杂交和内进越来越被认为是显著的进化力量.
- 目前用于检测杂交的方法通常依赖于来自小分类群的总结统计数据.
- 这些方法经常假设恒定的进化速率,这种条件在真实数据中往往没有得到满足.
研究的目的:
- 量化进化速率变化对广泛使用的杂交检测试验的影响.
- 为了评估D测试 (ABBA-BABA),D3测试和HyDe在变速下的稳定性.
- 评估血统特异性和基因特异性速率变化如何影响这些测试的准确性.
主要方法:
- 模拟的物种网络使用出生-死亡-杂交模型来表示现实的家族遗传场景.
- 量化了跨物种谱系,基因和基因树边缘的速率变化的影响.
- 评估了1型错误率 (错误发现网膜) 和检测杂交的功率.
主要成果:
- 跨物种谱系的速率变化显著增加了所有测试方法的错误发现率.
- D3测试对速率变化的敏感度很高,显示~80%的类型-1错误,这表明它检测速率偏差比网络化更多.
- 增加的杂交事件降低了所有测试的功率,表明在复杂场景中隐藏信号的潜力.
结论:
- 广泛使用的杂交综合统计测试对进化速率变化敏感,导致膨胀的假阳性率.
- D3测试特别容易受到速率变化的影响,可能误解时钟偏离为杂交.
- 未来的研究应该考虑可靠的方法来计算速率变化或明确考虑它,以准确推断杂交事件.
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