种群与进化
We investigate the evolution of quiescence within the framework of Adaptive Dynamics for an SIQS (Susceptible - Infected - Quiescent) model with constant environment. In the first part of the paper, the competition of two strains which have…
Compartmental models like the Susceptible-Infected-Recovered (SIR)\cite{Kermack1927} and its extensions such as the Susceptible-Exposed-Infected-Recovered (SEIRS)\cite{Ottar2020,Ignazio2021,Grimm2021,Paoluzzi2021} are commonly used to model…
The population density and per-generation dispersal rate of a population are central parameters in the study of evolution and ecology. The distribution of recent coalescent events between individuals in space can be used to estimate such…
Genetic transfers are pervasive across both prokaryotes and eukaryotes, encompassing canonical genomic introgression between species or genera and horizontal gene transfer (HGT) across kingdoms. However, DNA transfer between…
Planet Earth and the biodiversity it supports are in crisis. Human impact on terrestrial, marine and freshwater ecosystems and the hundreds of thousands of organisms that inhabit them is global. To what extent can we push ecosystems before…
In phylogenomics, species-tree methods must contend with two major sources of noise; stochastic gene-tree variation under the multispecies coalescent model (MSC) and finite-sequence substitutional noise. Fast agglomerative methods such as…
We present a simple physical model that recapitulates several features of biological evolution, while being based only on thermally-driven attachment and detachment of elementary building blocks. Through its dynamics, this model samples a…
Cooperation arises in nature at every scale, from within cells to entire ecosystems. In the framework of evolutionary game theory, public goods games (PGGs) are used to analyse scenarios where individuals can cooperate or defect, and can…
Genetic mutations are footprints of tumour growth. While mutation data in bulk samples has been used to infer evolutionary parameters hard to measure in vivo, the advent of single-cell data has led to strong interest in the mutational…
Phylogenetic profiles - presence-absence patterns of genes across taxa - are rich information sources for inferring the evolutionary history of genes and gene families. When aggregated across many genes, these profiles can reveal…
We study the deterministic Susceptible-Infected-Susceptible (SIS) epidemic model on weighted graphs. In their numerical study [10] van Mieghem et al. have shown that it is possible to learn an estimated network from a finite time sample of…
We present a method for reconstructing evolutionary trees from high-dimensional data, with a specific application to bird song spectrograms. We address the challenge of inferring phylogenetic relationships from phenotypic traits, like…
The mapping of plant biodiversity represents a fundamental stage in establishing conservation priorities, particularly in identifying groups of species that share ecological requirements or evolutionary histories. This is often achieved by…
When approached by predators, prey must decide whether to flee or remain and fight. The economics of such decisions are underlain by the trade-off between current and residual fitness. The trade-off predicts that (i) breeders should be less…
Demography of herbivorous mammal populations may be affected by changes in predation, population density, harvesting, and climate. Whereas numerous studies have focused on the effect of single environmental variables on individual…
Selection analyses of long-term field data frequently use annual comparisons from longlived species with overlapping generations to measure fitness differences with respect to phenotypic characteristics, such as annual phenological timing.…
Conventional wisdom suggests that environmental noise drives populations toward extinction. In contrast, we report a paradoxical phenomenon in which stochasticity reverses a deterministic tipping point, thereby preventing collapse. Using a…
Epidemic forecasting tools embrace the stochasticity and heterogeneity of disease spread to predict the growth and size of outbreaks. Conceptually, stochasticity and heterogeneity are often modeled as branching processes or as percolation…
Prosocial behaviours have been extensively studied across multiple disciplines. Cooperation, requiring a personal cost for collective benefits, is widespread in nature and human society, having been explained through mechanisms such as kin…
This study explores the historical ecology of the Bavarian Forest at the threshold of modernity through the lens of a large-scale biodiversity survey conducted in 1845 across the Kingdom of Bavaria. Focusing on the Forestry Office of…