Journal of Mathematical Biology最新文献

筛选
英文 中文
In distributive phosphorylation catalytic constants enable non-trivial dynamics. 在分布式磷酸化过程中,催化常数可实现非三维动态变化。
IF 2.2 4区 数学
Journal of Mathematical Biology Pub Date : 2024-06-25 DOI: 10.1007/s00285-024-02114-8
Carsten Conradi, Maya Mincheva
{"title":"In distributive phosphorylation catalytic constants enable non-trivial dynamics.","authors":"Carsten Conradi, Maya Mincheva","doi":"10.1007/s00285-024-02114-8","DOIUrl":"10.1007/s00285-024-02114-8","url":null,"abstract":"<p><p>Ordered distributive double phosphorylation is a recurrent motif in intracellular signaling and control. It is either sequential (where the site phosphorylated last is dephosphorylated first) or cyclic (where the site phosphorylated first is dephosphorylated first). Sequential distributive double phosphorylation has been extensively studied and an inequality involving only the catalytic constants of kinase and phosphatase is known to be sufficient for multistationarity. As multistationarity is necessary for bistability it has been argued that these constants enable bistability. Here we show for cyclic distributive double phosphorylation that if its catalytic constants satisfy an analogous inequality, then Hopf bifurcations and hence sustained oscillations can occur. Hence we argue that in distributive double phosphorylation (sequential or distributive) the catalytic constants enable non-trivial dynamics. In fact, if the rate constant values in a network of cyclic distributive double phosphorylation satisfy this inequality, then a network of sequential distributive double phosphorylation with the same rate constant values will show multistationarity-albeit for different values of the total concentrations. For cyclic distributive double phosphorylation we further describe a procedure to generate rate constant values where Hopf bifurcations and hence sustained oscillations can occur. This may, for example, allow for an efficient sampling of oscillatory regions in parameter space. Our analysis is greatly simplified by the fact that it is possible to reduce the network of cyclic distributive double phosphorylation to what we call a network with a single extreme ray. We summarize key properties of these networks.</p>","PeriodicalId":50148,"journal":{"name":"Journal of Mathematical Biology","volume":"89 2","pages":"20"},"PeriodicalIF":2.2,"publicationDate":"2024-06-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11199316/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141452062","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
The role of Allee effects for Gaussian and Lévy dispersals in an environmental niche. 环境生态位中高斯分散和莱维分散的阿利效应的作用
IF 2.2 4区 数学
Journal of Mathematical Biology Pub Date : 2024-06-25 DOI: 10.1007/s00285-024-02106-8
Serena Dipierro, Edoardo Proietti Lippi, Enrico Valdinoci
{"title":"The role of Allee effects for Gaussian and Lévy dispersals in an environmental niche.","authors":"Serena Dipierro, Edoardo Proietti Lippi, Enrico Valdinoci","doi":"10.1007/s00285-024-02106-8","DOIUrl":"10.1007/s00285-024-02106-8","url":null,"abstract":"<p><p>In the study of biological populations, the Allee effect detects a critical density below which the population is severely endangered and at risk of extinction. This effect supersedes the classical logistic model, in which low densities are favorable due to lack of competition, and includes situations related to deficit of genetic pools, inbreeding depression, mate limitations, unavailability of collaborative strategies due to lack of conspecifics, etc. The goal of this paper is to provide a detailed mathematical analysis of the Allee effect. After recalling the ordinary differential equation related to the Allee effect, we will consider the situation of a diffusive population. The dispersal of this population is quite general and can include the classical Brownian motion, as well as a Lévy flight pattern, and also a \"mixed\" situation in which some individuals perform classical random walks and others adopt Lévy flights (which is also a case observed in nature). We study the existence and nonexistence of stationary solutions, which are an indication of the survival chance of a population at the equilibrium. We also analyze the associated evolution problem, in view of monotonicity in time of the total population, energy consideration, and long-time asymptotics. Furthermore, we also consider the case of an \"inverse\" Allee effect, in which low density populations may access additional benefits.</p>","PeriodicalId":50148,"journal":{"name":"Journal of Mathematical Biology","volume":"89 2","pages":"19"},"PeriodicalIF":2.2,"publicationDate":"2024-06-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141447454","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
Multistationarity questions in reduced versus extended biochemical networks. 简化生化网络与扩展生化网络中的多稳定性问题。
IF 2.2 4区 数学
Journal of Mathematical Biology Pub Date : 2024-06-24 DOI: 10.1007/s00285-024-02115-7
Alicia Dickenstein, Magalí Giaroli, Mercedes Pérez Millán, Rick Rischter
{"title":"Multistationarity questions in reduced versus extended biochemical networks.","authors":"Alicia Dickenstein, Magalí Giaroli, Mercedes Pérez Millán, Rick Rischter","doi":"10.1007/s00285-024-02115-7","DOIUrl":"10.1007/s00285-024-02115-7","url":null,"abstract":"<p><p>We address several questions in reduced versus extended networks via the elimination or addition of intermediate complexes in the framework of chemical reaction networks with mass-action kinetics. We clarify and extend advances in the literature concerning multistationarity in this context, mainly from Feliu and Wiuf (J R Soc Interface 10:20130484, 2013), Sadeghimanesh and Feliu (Bull Math Biol 81:2428-2462, 2019), Pérez Millán and Dickenstein (SIAM J Appl Dyn Syst 17(2):1650-1682, 2018), Dickenstein et al. (Bull Math Biol 81:1527-1581, 2019). We establish general results about MESSI systems, which we use to compute the circuits of multistationarity for significant biochemical networks.</p>","PeriodicalId":50148,"journal":{"name":"Journal of Mathematical Biology","volume":"89 2","pages":"18"},"PeriodicalIF":2.2,"publicationDate":"2024-06-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141447487","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
Homeostasis in networks with multiple inputs. 多输入网络中的平衡。
IF 2.2 4区 数学
Journal of Mathematical Biology Pub Date : 2024-06-20 DOI: 10.1007/s00285-024-02117-5
João Luiz de Oliveira Madeira, Fernando Antoneli
{"title":"Homeostasis in networks with multiple inputs.","authors":"João Luiz de Oliveira Madeira, Fernando Antoneli","doi":"10.1007/s00285-024-02117-5","DOIUrl":"10.1007/s00285-024-02117-5","url":null,"abstract":"<p><p>Homeostasis, also known as adaptation, refers to the ability of a system to counteract persistent external disturbances and tightly control the output of a key observable. Existing studies on homeostasis in network dynamics have mainly focused on 'perfect adaptation' in deterministic single-input single-output networks where the disturbances are scalar and affect the network dynamics via a pre-specified input node. In this paper we provide a full classification of all possible network topologies capable of generating infinitesimal homeostasis in arbitrarily large and complex multiple inputs networks. Working in the framework of 'infinitesimal homeostasis' allows us to make no assumption about how the components are interconnected and the functional form of the associated differential equations, apart from being compatible with the network architecture. Remarkably, we show that there are just three distinct 'mechanisms' that generate infinitesimal homeostasis. Each of these three mechanisms generates a rich class of well-defined network topologies-called homeostasis subnetworks. More importantly, we show that these classes of homeostasis subnetworks provides a topological basis for the classification of 'homeostasis types': the full set of all possible multiple inputs networks can be uniquely decomposed into these special homeostasis subnetworks. We illustrate our results with some simple abstract examples and a biologically realistic model for the co-regulation of calcium ( <math><mtext>Ca</mtext></math> ) and phosphate ( <math><msub><mtext>PO</mtext> <mn>4</mn></msub> </math> ) in the rat. Furthermore, we identify a new phenomenon that occurs in the multiple input setting, that we call homeostasis mode interaction, in analogy with the well-known characteristic of multiparameter bifurcation theory.</p>","PeriodicalId":50148,"journal":{"name":"Journal of Mathematical Biology","volume":"89 2","pages":"17"},"PeriodicalIF":2.2,"publicationDate":"2024-06-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11190020/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141433260","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
A hybrid Lagrangian-Eulerian model for vector-borne diseases. 病媒传播疾病的拉格朗日-欧勒混合模型。
IF 2.2 4区 数学
Journal of Mathematical Biology Pub Date : 2024-06-18 DOI: 10.1007/s00285-024-02109-5
Daozhou Gao, Xiaoyan Yuan
{"title":"A hybrid Lagrangian-Eulerian model for vector-borne diseases.","authors":"Daozhou Gao, Xiaoyan Yuan","doi":"10.1007/s00285-024-02109-5","DOIUrl":"10.1007/s00285-024-02109-5","url":null,"abstract":"<p><p>In this paper, a multi-patch and multi-group vector-borne disease model is proposed to study the effects of host commuting (Lagrangian approach) and/or vector migration (Eulerian approach) on disease spread. We first define the basic reproduction number of the model, <math><msub><mi>R</mi> <mn>0</mn></msub> </math> , which completely determines the global dynamics of the model system. Namely, if <math> <mrow><msub><mi>R</mi> <mn>0</mn></msub> <mo>≤</mo> <mn>1</mn></mrow> </math> , then the disease-free equilibrium is globally asymptotically stable, and if <math> <mrow><msub><mi>R</mi> <mn>0</mn></msub> <mo>></mo> <mn>1</mn></mrow> </math> , then there exists a unique endemic equilibrium which is globally asymptotically stable. Then, we show that the basic reproduction number has lower and upper bounds which are independent of the host residence times matrix and the vector migration matrix. In particular, nonhomogeneous mixing of hosts and vectors in a homogeneous environment generally increases disease persistence and the basic reproduction number of the model attains its minimum when the distributions of hosts and vectors are proportional. Moreover, <math><msub><mi>R</mi> <mn>0</mn></msub> </math> can also be estimated by the basic reproduction numbers of disconnected patches if the environment is homogeneous. The optimal vector control strategy is obtained for a special scenario. In the two-patch and two-group case, we numerically analyze the dependence of the basic reproduction number and the total number of infected people on the host residence times matrix and illustrate the optimal vector control strategy in homogeneous and heterogeneous environments.</p>","PeriodicalId":50148,"journal":{"name":"Journal of Mathematical Biology","volume":"89 2","pages":"16"},"PeriodicalIF":2.2,"publicationDate":"2024-06-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11189357/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141421694","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
Phytoplankton-chytrid-zooplankton dynamics via a reaction-diffusion-advection mycoloop model. 通过反应-扩散-对流菌环模型研究浮游植物-恙虫-浮游动物动力学。
IF 2.2 4区 数学
Journal of Mathematical Biology Pub Date : 2024-06-17 DOI: 10.1007/s00285-024-02113-9
Jimin Zhang, Xu Han, Hao Wang
{"title":"Phytoplankton-chytrid-zooplankton dynamics via a reaction-diffusion-advection mycoloop model.","authors":"Jimin Zhang, Xu Han, Hao Wang","doi":"10.1007/s00285-024-02113-9","DOIUrl":"10.1007/s00285-024-02113-9","url":null,"abstract":"<p><p>Mycoloop is an important aquatic food web composed of phytoplankton, chytrids (one dominant group of parasites in aquatic ecosystems), and zooplankton. Chytrids infect phytoplankton and fragment them for easy consumption by zooplankton. The free-living chytrid zoospores are also a food resource for zooplankton. A dynamic reaction-diffusion-advection mycoloop model is proposed to describe the Phytoplankton-chytrid-zooplankton interactions in a poorly mixed aquatic environment. We analyze the dynamics of the mycoloop model to obtain dissipativity, steady state solutions, and persistence. We rigorously derive several critical thresholds for phytoplankton or zooplankton invasion and chytrid transmission among phytoplankton. Numerical diagrams show that varying ecological factors affect the formation and breakup of the mycoloop, and zooplankton can inhibit chytrid transmission among phytoplankton. Furthermore, this study suggests that mycoloop may either control or cause phytoplankton blooms.</p>","PeriodicalId":50148,"journal":{"name":"Journal of Mathematical Biology","volume":"89 2","pages":"15"},"PeriodicalIF":2.2,"publicationDate":"2024-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141332386","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
Mixed uncertainty analysis on pumping by peristaltic hearts using Dempster-Shafer theory. 利用 Dempster-Shafer 理论对蠕动心脏泵送进行混合不确定性分析。
IF 2.2 4区 数学
Journal of Mathematical Biology Pub Date : 2024-06-16 DOI: 10.1007/s00285-024-02116-6
Yanyan He, Nicholas A Battista, Lindsay D Waldrop
{"title":"Mixed uncertainty analysis on pumping by peristaltic hearts using Dempster-Shafer theory.","authors":"Yanyan He, Nicholas A Battista, Lindsay D Waldrop","doi":"10.1007/s00285-024-02116-6","DOIUrl":"10.1007/s00285-024-02116-6","url":null,"abstract":"<p><p>In this paper, we introduce the numerical strategy for mixed uncertainty propagation based on probability and Dempster-Shafer theories, and apply it to the computational model of peristalsis in a heart-pumping system. Specifically, the stochastic uncertainty in the system is represented with random variables while epistemic uncertainty is represented using non-probabilistic uncertain variables with belief functions. The mixed uncertainty is propagated through the system, resulting in the uncertainty in the chosen quantities of interest (QoI, such as flow volume, cost of transport and work). With the introduced numerical method, the uncertainty in the statistics of QoIs will be represented using belief functions. With three representative probability distributions consistent with the belief structure, global sensitivity analysis has also been implemented to identify important uncertain factors and the results have been compared between different peristalsis models. To reduce the computational cost, physics constrained generalized polynomial chaos method is adopted to construct cheaper surrogates as approximations for the full simulation.</p>","PeriodicalId":50148,"journal":{"name":"Journal of Mathematical Biology","volume":"89 1","pages":"13"},"PeriodicalIF":2.2,"publicationDate":"2024-06-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141328060","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
Parasite infection in a cell population: role of the partitioning kernel. 细胞群中的寄生虫感染:分割核的作用。
IF 2.2 4区 数学
Journal of Mathematical Biology Pub Date : 2024-06-16 DOI: 10.1007/s00285-024-02110-y
Aline Marguet, Charline Smadi
{"title":"Parasite infection in a cell population: role of the partitioning kernel.","authors":"Aline Marguet, Charline Smadi","doi":"10.1007/s00285-024-02110-y","DOIUrl":"10.1007/s00285-024-02110-y","url":null,"abstract":"<p><p>We consider a cell population subject to a parasite infection. Cells divide at a constant rate and, at division, share the parasites they contain between their two daughter cells. The sharing may be asymmetric, and its law may depend on the number of parasites in the mother. Cells die at a rate which may depend on the number of parasites they carry, and are also killed when this number explodes. We study the survival of the cell population as well as the mean number of parasites in the cells, and focus on the role of the parasites partitioning kernel at division.</p>","PeriodicalId":50148,"journal":{"name":"Journal of Mathematical Biology","volume":"89 1","pages":"14"},"PeriodicalIF":2.2,"publicationDate":"2024-06-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141328061","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
Dynamics of simplicial SEIRS epidemic model: global asymptotic stability and neural Lyapunov functions. 简约 SEIRS 流行模型的动力学:全局渐近稳定性和神经 Lyapunov 函数。
IF 2.2 4区 数学
Journal of Mathematical Biology Pub Date : 2024-06-16 DOI: 10.1007/s00285-024-02119-3
Yukun Zou, Xiaoxiao Peng, Wei Yang, Jingdong Zhang, Wei Lin
{"title":"Dynamics of simplicial SEIRS epidemic model: global asymptotic stability and neural Lyapunov functions.","authors":"Yukun Zou, Xiaoxiao Peng, Wei Yang, Jingdong Zhang, Wei Lin","doi":"10.1007/s00285-024-02119-3","DOIUrl":"10.1007/s00285-024-02119-3","url":null,"abstract":"<p><p>The transmission of infectious diseases on a particular network is ubiquitous in the physical world. Here, we investigate the transmission mechanism of infectious diseases with an incubation period using a networked compartment model that contains simplicial interactions, a typical high-order structure. We establish a simplicial SEIRS model and find that the proportion of infected individuals in equilibrium increases due to the many-body connections, regardless of the type of connections used. We analyze the dynamics of the established model, including existence and local asymptotic stability, and highlight differences from existing models. Significantly, we demonstrate global asymptotic stability using the neural Lyapunov function, a machine learning technique, with both numerical simulations and rigorous analytical arguments. We believe that our model owns the potential to provide valuable insights into transmission mechanisms of infectious diseases on high-order network structures, and that our approach and theory of using neural Lyapunov functions to validate model asymptotic stability can significantly advance investigations on complex dynamics of infectious disease.</p>","PeriodicalId":50148,"journal":{"name":"Journal of Mathematical Biology","volume":"89 1","pages":"12"},"PeriodicalIF":2.2,"publicationDate":"2024-06-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141328059","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
Ancestral reproductive bias in continuous-time branching trees under various sampling schemes. 各种采样方案下连续时间分支树的祖先生殖偏差
IF 2.2 4区 数学
Journal of Mathematical Biology Pub Date : 2024-06-14 DOI: 10.1007/s00285-024-02105-9
Jan Lukas Igelbrink, Jasper Ischebeck
{"title":"Ancestral reproductive bias in continuous-time branching trees under various sampling schemes.","authors":"Jan Lukas Igelbrink, Jasper Ischebeck","doi":"10.1007/s00285-024-02105-9","DOIUrl":"10.1007/s00285-024-02105-9","url":null,"abstract":"<p><p>Cheek and Johnston (JMB 86:70, 2023) consider a continuous-time Bienaymé-Galton-Watson tree conditioned on being alive at time T. They study the reproduction events along the ancestral lineage of an individual randomly sampled from all those alive at time T. We give a short proof of an extension of their main results (Cheek and Johnston in JMB 86:70, 2023, Theorems 2.3 and 2.4) to the more general case of Bellman-Harris processes. Our proof also sheds light onto the probabilistic structure of the rate of the reproduction events. A similar method will be applied to explain (i) the different ancestral reproduction bias appearing in work by Geiger (JAP 36:301-309, 1999) and (ii) the fact that the sampling rule considered by Chauvin et al. (SPA 39:117-130, 1991), (Theorem 1) leads to a time homogeneous process along the ancestral lineage.</p>","PeriodicalId":50148,"journal":{"name":"Journal of Mathematical Biology","volume":"89 1","pages":"11"},"PeriodicalIF":2.2,"publicationDate":"2024-06-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11178658/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141318852","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
0
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
相关产品
×
本文献相关产品
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信