Journal of Theoretical Biology最新文献_第3页

Ancestral process for infectious disease outbreaks with superspreading 具有超级传播性的传染病爆发的祖先过程

IF 1.9 4区数学

Journal of Theoretical Biology Pub Date : 2025-04-14 DOI: 10.1016/j.jtbi.2025.112109

Xavier Didelot , David Helekal , Ian Roberts

引用次数: 0

What does the tree of life look like as it grows? Evolution and the multifractality of time 生命之树生长的时候是什么样子的？进化和时间的多重分形

IF 1.9 4区数学

Journal of Theoretical Biology Pub Date : 2025-04-11 DOI: 10.1016/j.jtbi.2025.112121

Kevin Hudnall , Raissa M. D’Souza

{"title":"What does the tree of life look like as it grows? Evolution and the multifractality of time","authors":"Kevin Hudnall , Raissa M. D’Souza","doi":"10.1016/j.jtbi.2025.112121","DOIUrl":"10.1016/j.jtbi.2025.112121","url":null,"abstract":"<div><div>By unifying three foundational principles of modern biology, we develop a mathematical framework to analyze the growing tree of life. Contrary to the static case, where the analogy between phylogenetic trees and the tree that grows in soil is drawn, our framework shows that the living tree of life is analogous to a Cantor dust where each branch is a distinct fractal curve. The system as a whole is therefore multifractal in the sense that it consists of many unique fractals. The three foundational principles for the mathematical framework are that phylogeny is nested, phylogeny is dualistic (i.e., transitive between singularities and populations), and phylogeny is stochastic. Integrating these three principles, we model the dynamic (i.e., <em>living</em>) tree of life as a random iterated function system that generates unique convexly related sequences of branching random variables (visualized in <span><span><strong>Animation 1</strong></span></span>). The multifractal nature of this dynamic tree of life implies that, for any two living entities, the time interval from their last common ancestor to the present moment is a distinct fractal curve for each. Thus, the length of a time interval along each distinct branch is unique, so that time is also multifractal and not an ultrametric on the tree of life.</div></div>","PeriodicalId":54763,"journal":{"name":"Journal of Theoretical Biology","volume":"607 ","pages":"Article 112121"},"PeriodicalIF":1.9,"publicationDate":"2025-04-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143870413","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Evolution of predators and prey kills Turing patterns 捕食者和猎物的进化扼杀了图灵模式

IF 1.9 4区数学

Journal of Theoretical Biology Pub Date : 2025-04-11 DOI: 10.1016/j.jtbi.2025.112107

Vit Piskovsky

{"title":"Evolution of predators and prey kills Turing patterns","authors":"Vit Piskovsky","doi":"10.1016/j.jtbi.2025.112107","DOIUrl":"10.1016/j.jtbi.2025.112107","url":null,"abstract":"<div><div>The spatiotemporal patterns of predators and their prey play a pivotal role in ecology and ecological interactions influence their formation. In particular, motility has been proposed to drive the emergence of spatiotemporal predator-prey patterns via the Turing mechanism. However, the predicted Turing patterns do not exhibit temporal changes that are common in experiments and nature. Moreover, the Turing mechanism treats motility as fixed, even though predators and prey adjust their motility in response to each other and their interactions influence their evolution. Using adaptive dynamics, I prove that the evolution of motility prevents the formation of Turing patterns and promotes the formation of dynamic patterns, such as predator-prey waves. Furthermore, I show that multiple motility phenotypes can induce predator-prey oscillations even for stabilising temporal dynamics, which extends the emergence of predator-prey cycles beyond the regimes predicted by the Lotka–Volterra or Rosenzweig–MacArthur models that require oscillatory temporal dynamics. This work unites models for predator-prey spatiotemporal patterns and evolution of motility to explain how dynamic spatiotemporal patterns of co-evolving predators and prey emerge and persist. The novel mathematical theory is general and extends to other ecological situations, such as ecological public goods games.</div></div>","PeriodicalId":54763,"journal":{"name":"Journal of Theoretical Biology","volume":"607 ","pages":"Article 112107"},"PeriodicalIF":1.9,"publicationDate":"2025-04-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143891331","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Arterial arcades and collaterals regress under hemodynamics-based diameter adaptation: A computational and mathematical analysis 在基于血流动力学的直径适应下动脉拱廊和侧枝的退化：一个计算和数学分析。

IF 1.9 4区数学

Journal of Theoretical Biology Pub Date : 2025-04-06 DOI: 10.1016/j.jtbi.2025.112111

Vivi Rottschäfer , Willem G.N. Kuppers , Jiao Chen , Ed van Bavel

{"title":"Arterial arcades and collaterals regress under hemodynamics-based diameter adaptation: A computational and mathematical analysis","authors":"Vivi Rottschäfer , Willem G.N. Kuppers , Jiao Chen , Ed van Bavel","doi":"10.1016/j.jtbi.2025.112111","DOIUrl":"10.1016/j.jtbi.2025.112111","url":null,"abstract":"<div><div>Arterial networks exhibit a wide range of segment radii, largely thought to result from adaptation to wall shear stress (WSS). Segments remodel outward or inward if WSS is higher or lower than a reference value. While this mechanism seems straightforward for arterial trees, real networks contain arcades, collaterals, and loops. We investigated the stability of these looping structures under WSS control using simulation models of small networks and published coronary and cerebral artery data.</div><div>Adaptation was modeled as changes in segment radius proportional to deviations from reference WSS. A generalized model included other hemodynamic stimuli like flow and velocity. Simulations consistently predicted loop regression due to the loss of one or more segments, both for the WSS model and the generalized model, regardless of initial conditions or model parameters. This loop loss was also observed in networks with heterogeneous adaptation rates or under dynamic conditions.</div><div>A mathematical analysis confirmed that loop instability is a direct consequence of Kirchhoff’s circuit law, leading to unstable equilibria. Thus, loss of loops is an inherent outcome of arterial networks adapting to local hemodynamics. Additional mechanisms, such as communication between connected segments, may be needed to explain the presence of loops in real networks.</div></div>","PeriodicalId":54763,"journal":{"name":"Journal of Theoretical Biology","volume":"607 ","pages":"Article 112111"},"PeriodicalIF":1.9,"publicationDate":"2025-04-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143812910","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Power asymmetry destabilizes reciprocal cooperation in social dilemmas 权力不对称破坏了社会困境中的互惠合作。

IF 1.9 4区数学

Journal of Theoretical Biology Pub Date : 2025-04-06 DOI: 10.1016/j.jtbi.2025.112106

Marco Colnaghi , Fernando P. Santos , Paul A.M. Van Lange , Daniel Balliet

{"title":"Power asymmetry destabilizes reciprocal cooperation in social dilemmas","authors":"Marco Colnaghi , Fernando P. Santos , Paul A.M. Van Lange , Daniel Balliet","doi":"10.1016/j.jtbi.2025.112106","DOIUrl":"10.1016/j.jtbi.2025.112106","url":null,"abstract":"<div><div>Direct reciprocity has been long identified as a mechanism to support the evolution of cooperation in social dilemmas. While most research on reciprocal cooperation has focused on symmetrical interactions, real world interactions often involve differences in power. Verbal theories have either claimed that power differences enhance or destabilize cooperation, indicating the need for a comprehensive theoretical model of how power asymmetries affect direct reciprocity. Here, we investigate the relationship between power and cooperation in two frequently studied social dilemmas, the prisoner’s dilemma (PD) and the snowdrift game (SD). Combining evolutionary game theory and agent-based models, we demonstrate that power asymmetries are detrimental to the evolution of cooperation. Strategies that are contingent on power within an interaction provide a selective advantage in the iterated SD, but not in the iterated PD. In both games, the rate of cooperation declines as power asymmetry increases, indicating that a more egalitarian distribution of the benefits of cooperation is the prerequisite for direct reciprocity to evolve and be maintained.</div></div>","PeriodicalId":54763,"journal":{"name":"Journal of Theoretical Biology","volume":"606 ","pages":"Article 112106"},"PeriodicalIF":1.9,"publicationDate":"2025-04-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143812913","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A single-locus quantitative genetic model incorporating DNA methylation 结合DNA甲基化的单位点定量遗传模型。

IF 1.9 4区数学

Journal of Theoretical Biology Pub Date : 2025-04-04 DOI: 10.1016/j.jtbi.2025.112110

L. Ayres, H. Bovenhuis, M.P.L. Calus

引用次数: 0

Modelling with SPEED: a Stochastic Predictor of Early Epidemic Detection 用SPEED建模：流行病早期检测的随机预测器。

IF 1.9 4区数学

Journal of Theoretical Biology Pub Date : 2025-04-04 DOI: 10.1016/j.jtbi.2025.112120

Kathryn H. Bowers , Daniela De Angelis , Paul J. Birrell

{"title":"Modelling with SPEED: a Stochastic Predictor of Early Epidemic Detection","authors":"Kathryn H. Bowers , Daniela De Angelis , Paul J. Birrell","doi":"10.1016/j.jtbi.2025.112120","DOIUrl":"10.1016/j.jtbi.2025.112120","url":null,"abstract":"<div><div>The frequency of emerging infectious disease outbreaks continues to rise, necessitating predictive frameworks for public health decision-making. This study introduces the Stochastic Predictor of Early Epidemic Detection (SPEED) model, an adaptation of the classic Susceptible-Infected-Recovered model, employing a Gillespie-like algorithm to simulate early-stage stochastic disease transmission. SPEED incorporates individual-level detection probabilities based on the infection time and the lag from GP consultation to lab confirmation. The model dynamically adjusts to public health responses by enhancing testing and reducing detection times once a single case has been identified. SPEED serves two key functionalities. First, as a statistical inference tool refining reproduction number estimates following the detection of a small number of cases. SPEED inference uses specified prior distributions for the reproduction number to provide reliable posterior estimates. Second, to simulate epidemic scenarios under specified values of the reproduction number in order to construct a distribution of the time to subsequent detections. The model is used to evaluate how second case timings can rule out higher values of the reproduction number. Comparisons with simulations under heightened surveillance scenarios demonstrate the model’s utility in assessing response efficacy on the initial outbreak spread. Our results demonstrate SPEED applied to a single case of influenza A(H1N2)v, detected through routine flu surveillance on the 23rd November 2023.</div></div>","PeriodicalId":54763,"journal":{"name":"Journal of Theoretical Biology","volume":"607 ","pages":"Article 112120"},"PeriodicalIF":1.9,"publicationDate":"2025-04-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143797051","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Many-strategy games in groups with relatives and the evolution of coordinated cooperation 亲属群体多策略博弈与协调合作的演化

IF 1.9 4区数学

Journal of Theoretical Biology Pub Date : 2025-03-28 DOI: 10.1016/j.jtbi.2025.112089

Nadiah P. Kristensen , Ryan A. Chisholm , Hisashi Ohtsuki

{"title":"Many-strategy games in groups with relatives and the evolution of coordinated cooperation","authors":"Nadiah P. Kristensen , Ryan A. Chisholm , Hisashi Ohtsuki","doi":"10.1016/j.jtbi.2025.112089","DOIUrl":"10.1016/j.jtbi.2025.112089","url":null,"abstract":"<div><div>Humans often cooperate in groups with friends and family members with varying degrees of genetic relatedness. Past kin selection can also be relevant to interactions between strangers, explaining how the cooperation first arose in the ancestral population. However, modelling the effects of relatedness is difficult when the benefits of cooperation scale nonlinearly with the number of cooperators (e.g., economies of scale). Here, we present a direct fitness method for rigorously accounting for kin selection in <span><math><mi>n</mi></math></span>-player interactions with <span><math><mi>m</mi></math></span> discrete strategies, where a genetically homophilic group-formation model is used to calculate the necessary higher-order relatedness coefficients. Our approach allows us to properly account for non-additive fitness effects between relatives (synergy). Analytical expressions for dynamics are obtained, and they can be solved numerically for modestly sized groups and numbers of strategies. We illustrate with an example where group members can verbally agree (cheap talk) to contribute to a public good with a sigmoidal benefit function, and we find that such coordinated cooperation is favoured by kin selection. As interactions switched from family to strangers, in order for coordinated cooperation to persist and for the population to resist invasion by liars, either some level of homophily must be maintained or following through on the agreement must be in the self-interests of contributors. Our approach is useful for scenarios where fitness effects are non-additive and the strategies are best modelled in a discrete way, such as behaviours that require a cognitive ‘leap’ of insight into the situation (e.g., shared intentionality, punishment).</div></div>","PeriodicalId":54763,"journal":{"name":"Journal of Theoretical Biology","volume":"605 ","pages":"Article 112089"},"PeriodicalIF":1.9,"publicationDate":"2025-03-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143725288","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Two-lane track geometry facilitates coordination of collective cell migration 双车道轨道几何便于集体细胞迁移的协调。

IF 1.9 4区数学

Journal of Theoretical Biology Pub Date : 2025-03-25 DOI: 10.1016/j.jtbi.2025.112105

Alistair D. Falconer , Zhiyong Li , Dietmar B. Oelz

引用次数: 0

Plant–pollinator interaction model with separate pollen and nectar dynamics 花粉和花蜜分离动态的植物-传粉者相互作用模型。

IF 1.9 4区数学

Journal of Theoretical Biology Pub Date : 2025-03-24 DOI: 10.1016/j.jtbi.2025.112096

Tomás A. Revilla

引用次数: 0