泰勒幂律规定了病毒进化过程中等位基因频率的动态变化,以响应宿主的变化。

IF 3.5 2区 综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES
Journal of The Royal Society Interface Pub Date : 2025-07-01 Epub Date: 2025-07-16 DOI:10.1098/rsif.2025.0146
João M F Silva, María J Olmo-Uceda, Valerie J Morley, Paul E Turner, Santiago F Elena
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引用次数: 0

摘要

从允许宿主到抵抗宿主的突然和逐渐的变化影响病毒的适应性、毒力和分子进化的速度。我们分析了不同宿主替代率下Sindbis病毒进化种群中随机性和选择的作用。首先,Wright-Fisher扩散框架内的近似马尔可夫模型显示,在突然的宿主变化下,有效种群规模减少了大约一半。这些情况也与较少的弱有益突变有关。第二,连续时间点种群间的遗传距离表明,经历寄主逐渐变化的种群在进化过程中趋于稳定,直至原寄主消失。在这些情况下,与祖先序列的距离偶尔表现出跳跃现象,在这种情况下,某些单倍型的兴起是无法根据它们与先前占主导地位的单倍型的相关性来预测的。相比之下,暴露于突变的种群表现出较不稳定的组成,并以一致的速度偏离祖先序列。第三,我们观察到等位基因频率的分布遵循泰勒幂定律。两种处理均表现出高水平的等位基因聚集和显著波动,中性、有益和有害等位基因可通过其在Taylor地块上的行为和位置加以区分。最后,我们发现了宿主替代制度影响突变在基因组中的时间分布的证据。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Taylor's Power Law rules the dynamics of allele frequencies during viral evolution in response to host changes.

Sudden and gradual changes from permissive to resistant hosts affect viral fitness, virulence and rates of molecular evolution. We analysed the roles of stochasticity and selection in evolving populations of Sindbis virus under different rates of host replacement. First, approximate Markov models within the Wright-Fisher diffusion framework revealed a reduction in effective population size by approximately half under sudden host changes. These scenarios were also associated with fewer weak beneficial mutations. Second, genetic distance between populations at consecutive time points indicated that populations undergoing gradual host changes evolved steadily until the original host disappeared. Distances to the ancestral sequence in these cases exhibited occasional leapfrog phenomena, where the rise of certain haplotypes is not predictable based on their relatedness to previously dominant ones. In contrast, populations exposed to sudden changes exhibited less-stable compositions and diverged from the ancestral sequence at a consistent rate. Third, we observed that the distribution of allele frequencies followed Taylor's Power Law. Both treatments exhibited high levels of allele aggregation and significant fluctuations, with neutral, beneficial and deleterious alleles distinguishable by their behaviour and position on Taylor's plot. Finally, we found evidence that the host replacement regime influences the temporal distribution of mutations across the genome.

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来源期刊
Journal of The Royal Society Interface
Journal of The Royal Society Interface 综合性期刊-综合性期刊
CiteScore
7.10
自引率
2.60%
发文量
234
审稿时长
2.5 months
期刊介绍: J. R. Soc. Interface welcomes articles of high quality research at the interface of the physical and life sciences. It provides a high-quality forum to publish rapidly and interact across this boundary in two main ways: J. R. Soc. Interface publishes research applying chemistry, engineering, materials science, mathematics and physics to the biological and medical sciences; it also highlights discoveries in the life sciences of relevance to the physical sciences. Both sides of the interface are considered equally and it is one of the only journals to cover this exciting new territory. J. R. Soc. Interface welcomes contributions on a diverse range of topics, including but not limited to; biocomplexity, bioengineering, bioinformatics, biomaterials, biomechanics, bionanoscience, biophysics, chemical biology, computer science (as applied to the life sciences), medical physics, synthetic biology, systems biology, theoretical biology and tissue engineering.
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