种群与进化
Realistic models of biological processes typically involve interacting components on multiple scales, driven by changing environment and inherent stochasticity. Such models are often analytically and numerically intractable. We revisit a…
Range expansion is a universal process in biological systems, and therefore plays a part in biological evolution. Using a quantitative individual-based method based on the stochastic process, we identify that enhancing the inherent…
Indirect reciprocity is a key mechanism that promotes cooperation in social dilemmas by means of reputation. Although it has been a common practice to represent reputations by binary values, either `good' or `bad', such a dichotomy is a…
The importance of spatial networks in the spread of an epidemic is an essential aspect in modeling the dynamics of an infectious disease. Additionally, any realistic data-driven model must take into account the large uncertainty in the…
The evolution of cooperation has remained an important problem in evolutionary theory and social sciences. In this regard, a curious question is why consistent cooperative and defective personalities exist and if they serve a role in the…
Natural populations often show enhanced genetic drift consistent with a strong skew in their offspring number distribution. The skew arises because the variability of family sizes is either inherently strong or amplified by population…
Genetic data are now routinely used to study the history of population size, subdivision, and gene flow. A variety of formal statistical methods is available for testing hypotheses and fitting models to data. Yet it is often unclear which…
We revisit here a landmark five parameter SIR-type model of [DvdD93, Sec. 4], which is maybe the simplest example where a complete picture of all cases, including non-trivial bistability behavior, may be obtained using simple tools. We also…
Understanding whether a population will survive and flourish or become extinct is a central question in population biology. One way of exploring this question is to study population dynamics using reaction-diffusion equations, where…
In light of the continuing emergence of new SARS-CoV-2 variants and vaccines, we create a simulation framework for exploring possible infection trajectories under various scenarios. The situations of primary interest involve the interaction…
How cooperation emerges in human societies is both an evolutionary enigma, and a practical problem with tangible implications for societal health. Population structure has long been recognized as a catalyst for cooperation because local…
Since the start of the still ongoing COVID-19 pandemic, there have been many modeling efforts to assess several issues of importance to public health. In this work, we review the theory behind some important mathematical models that have…
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the causative agent of the current global COVID-19 pandemic, in which millions of lives have been lost. Understanding the zoonotic evolution of the coronavirus may provide…
Phylogenetic comparative methods are new in our field and are shrouded, for most linguists, in at least a little mystery. Yet the path that led to their discovery in comparative biology is so similar to the methodological history of…
Phages are one of the most present groups of organisms in the biosphere. Their identification continues and their taxonomies are divergent. However, due to their evolution mode and the complexity of their species ecosystem, their…
Disease transmission is studied through disciplines like epidemiology, applied mathematics, and statistics. Mathematical simulation models for transmission have implications in solving public and personal health challenges. The SIR model…
This report is based on the work in (1). We first review definitions and notation developped there and provide derivations for the exact mathematical description of an SIS epidemic on a hypergraph. We then generalise the work in (1) to a…
A phylogenetic network is a simplex (or 1-component tree-child) network if the child of every reticulation node is a network leaf. Simplex networks are a superclass of phylogenetic trees and a subclass of tree-child networks. Generalizing…
Humankind has spread worldwide supported by cultural and technological knowledge, but the environmental sustainability on the human niche evolution depends on a new human beings relationship with the biosphere. Human lifestyles nowadays are…
Recently, Wang and Xu [ Appl. Math. Lett. 78 (2018) 105-111] studied thresholds and bi-stability in virus-immune dynamics. In this paper, we show there also exist backward bifurcation and saddle node bifurcation in this model. Our…