Populations & Evolution
Population dynamics, evolutionary biology, and epidemiological modeling.
q-bio.PE · 101 papersThe Co-evolution of Costly Signaling and Cooperation in Social Dilemmas
This paper models how costly signaling and cooperation co-evolve in social dilemmas, showing signals are selected by cooperative responses they elicit.
Shared quasispecies architecture in experimental and natural RNA virus populations
RNA viruses, despite diverse contexts, exhibit a shared hierarchical genotype network architecture, offering insights into predictable evolutionary patterns.
Conditioning as a route to stereotyped behavior in growing populations
This paper proposes 'conditioning' (destroying failed attempts) as a minimal strategy for biological systems to achieve reproducible, ordered multi-step processes.
The interplay of network structure and correlated infectious traits in epidemic models
This paper models epidemics by considering how network structure and correlated individual disease traits affect spread, deriving R0 and informing interventions.
Susceptible-Infected-Susceptible Model with Mitigation on Scale-Free Networks
This paper explores an SIS model on scale-free networks with a mitigation factor, revealing how it alters disease spread dynamics and prevalence.
Logarithmic scaling of selective sweep curves: from tents to houses
Logarithmic scaling transforms selective sweep curves from logistic to tent-like, then to a house shape, with proven convergence regularity.
Travelling waves of invasion in microbial communities with phenotypic switching
Microbial phenotypic switching surprisingly doesn't alter competitor invasion speed but can accelerate the switching population's own invasion, suggesting an offensive persistence strategy.
Dual Fear Mechanisms Shaping Stochastic Population Dynamics under the Allee Effect
This paper models how dual fear mechanisms influence stochastic population dynamics under the Allee effect, revealing noise-induced and fear-controlled regime changes.
Modeling the Impact of Exposed Cases in a Hantavirus Outbreak on a Cruise Ship
A stochastic model estimates hantavirus transmission on a cruise ship, revealing hidden exposed cases and a high reproduction number (2.76) before quarantine.
Quo nomine vis vocari? A random-copying model explains the temporal sequence of papal names
A random-copying model, akin to population genetics, explains the 2000-year temporal sequence of papal name choices.
Essential Role of Extrinsic Noise in Models of E. coli Division Control
This paper introduces a unified analytical model demonstrating the essential role of extrinsic noise and molecular mechanisms in E. coli cell division.
Higher-order interactions in ecology can be hidden in plain sight
This paper shows that higher-order ecological interactions are often indistinguishable from pairwise models using only time-series data, leading to misinterpretations.
A $μ$-distance for semidirected orchard phylogenetic networks
This paper introduces a new μ-distance for comparing semidirected orchard phylogenetic networks, enabling their distinction and reconstruction.
Towards a unified framework for multiple stable states in ecological systems
This paper proposes a unified mathematical framework for understanding multiple stable states in ecological systems, synthesizing empirical and theoretical approaches.
The Origin of Life in the Light of Evolution
This paper argues that origin-of-life research must shift focus from how life began to how it evolved from pre-biological systems.
Chapter 2: Geometry of the Fitness Surface and Trajectory Dynamics of Replicator Systems
This paper analyzes the geometry of fitness surfaces in replicator systems, showing trajectories often miss fitness peaks and linking equilibria to evolutionary stability.
Direct From Darwin: Deriving Advanced Optimizers From Evolutionary First Principles
This paper unifies Fisher's and Wright's evolutionary theories to derive advanced gradient optimizers, showing many existing algorithms are evolutionarily compliant.
A process-based dynamic occupancy model to study range dynamics under non-equilibrium conditions
This paper introduces a process-based dynamic occupancy model using dispersal-pressure and sparse matrices to study species range dynamics at large scales.
Algorithmic bottlenecks in evolution: Genetic code, symbolic language, and the Great Filter hypothesis
This paper proposes that the origins of genetic code and symbolic language are algorithmic bottlenecks explaining the Great Filter hypothesis.
Genotype specificity and spatial arrangement govern the direction and magnitude of selection in variable environments
This paper presents a unified framework showing how genotype specificity and spatial arrangement govern selection in variable environments.
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