种群与进化
Invasive pine trees pose a threat to biodiversity in a variety of Southern Hemisphere countries, but understanding of the dynamics of invasions and the factors that retard or accelerate spread is limited. Here, we consider the past models…
In this paper we elaborate on homogeneous and heterogeneous SIR-type epidemiological models. We find an unexpected correspondence between the epidemic trajectory of a transmissible disease in a homogeneous SIR-type model and radial null…
The fundamental models of epidemiology describe the progression of an infectious disease through a population using compartmentalized differential equations, but do not incorporate population-level heterogeneity in infection susceptibility.…
Susceptible-Infected-Recovered (SIR) models have been used for decades to understand epidemic outbreak dynamics. We develop an SIR model specifically designed to study the effects of population behavior with respect to health and…
Epidemiological models are an important tool in coping with epidemics, as they offer a forecast, even if often simplistic, of the behavior of the disease in the population. This allows responsible health agencies to organize themselves and…
Evolutionary scenarios describing the evolution of a family of genes within a collection of species comprise the mapping of the vertices of a gene tree $T$ to vertices and edges of a species tree $S$. The relative timing of the last common…
Foraging is crucial for animals to survive. Many species forage in groups, as individuals communicate to share information about the location of available resources. For example, eusocial foragers, such as honey bees and many ants, recruit…
Understanding waning of vaccine-induced protection is important for both immunology and public health. Population heterogeneities in underlying (pre-vaccination) susceptibility and vaccine response can cause measured vaccine effectiveness…
The Markovian approach, which assumes exponentially distributed interinfection times, is dominant in epidemic modeling. However, this assumption is unrealistic as an individual's infectiousness depends on its viral load and varies over…
The aim of this short note is twofold. We formulate the general Kermack-McKendrick epidemic model incorporating static heterogeneity and show how it simplifies to a scalar Renewal Equation (RE) when separable mixing is assumed. A key…
Phylogenetic networks are an extension of phylogenetic trees that allow for the representation of reticulate evolution events. One of the classes of networks that has gained the attention of the scientific community over the last years is…
There are two main life cycles in plants, annual and perennial. These life cycles are associated with different traits that determine ecosystem function. Although life cycles are textbook examples of plant adaptation to different…
Ecosystems with a large number of species are often modelled as Lotka-Volterra dynamical systems built around a large random interaction matrix. Under some known conditions, a global equilibrium exists and is unique. In this article, we…
Our earlier work in \cite{nguyen2022population} shows that concentrating the resources on the upstream end tends to maximize the total biomass in a metapopulation model for a stream species. In this paper, we continue our research direction…
Phylogenetic trees are frequently used to model evolution. Such trees are typically reconstructed from data like DNA, RNA, or protein alignments using methods based on criteria like maximum parsimony (amongst others). Maximum parsimony has…
We use fitness graphs, or directed cube graphs, for analyzing evolutionary reversibility. The main application is antimicrobial drug resistance. Reversible drug resistance has been observed both clinically and experimentally. If drug…
The assembly and persistence of ecological communities can be understood as the result of the interaction and migration of species. Here we study a single community subject to migration from a species pool in which inter-specific…
Cumulative cultural evolution occurs when adaptive innovations are passed down to consecutive generations through social learning. This process has shaped human technological innovation, but also occurs in non-human species. While it is…
The interaction between elephants and their environment has profound implications for both ecology and conservation strategies. This study presents an analytical approach to decipher the intricate patterns of elephant movement in…
Antigenic variation is the main immune escape mechanism for RNA viruses like influenza or SARS-CoV-2. While high mutation rates promote antigenic escape, they also induce large mutational loads and reduced fitness. It remains unclear how…