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MSMS: a coalescent simulation program including recombination, demographic structure and selection at a single locus
A coalescent simulation program for a structured population with selection at a single diploid locus that includes the functionality of the simulator ms to model population structure and demography, but adds a model for deme- and time-dependent selection using forward simulations.
Soft Sweeps
This work uses diffusion theory to calculate the probabilities for selective adaptations and finds a large increase in the fixation probability for weak substitutions, if alleles originate from the standing genetic variation.
Mathematical Ecology
• Josef Hofbauer and Karl Sigmund: Evolutionary Games and Population Dynamics, Cambridge University Press (∼ 49 Euro) • Linda Allen: An Introduction to Stochastic Processes with Applications to
Soft sweeps II--molecular population genetics of adaptation from recurrent mutation or migration.
This study uses analytical calculations based on coalescent theory and computer simulations to analyze molecular adaptation from recurrent mutation or migration, and derives a robust analytical approximation for the number of ancestral haplotypes and their distribution in a sample from the population.
This work focuses on the first kind of robustness—genetic robustness)—and survey three growing avenues of research: measuring genetic robustness in nature and in the laboratory; understanding the evolution of genetic robusts; and exploring the implications of genetic resilientness for future evolution.
Soft Sweeps III: The Signature of Positive Selection from Recurrent Mutation
The effect of adaptation from recurrent mutation on summary statistics for polymorphism data from a linked neutral locus is demonstrated and a variant of existing LD tests is suggested that increases their power to detect this signature.
The Population Genetic Theory of Hidden Variation and Genetic Robustness
This article introduces an approximation to the genetic variance in mutation-selection-drift balance that includes the previously used stochastic Gaussian and house-of-cards approximations as limiting cases and concludes that the release of hidden genetic variation is a generic property of models with epistasis or genotype-environment interaction, regardless of whether the wild-type genotype is canalized or not.
An Analytically Tractable Model for Competitive Speciation
The approach provides a mechanistic understanding of several phenomena that have been found in previous models and demonstrates how even in a simple model, the evolutionary outcome depends in a complex way on ecological and genetic parameters.
Mutation-selection balance: ancestry, load, and maximum principle.
The results are applied to threshold phenomena caused by the interplay of selection and mutation (known as error thresholds) and lead to a clarification of concepts, as well as criteria for the existence of error thresholds.
The Limits to Parapatric Speciation: Dobzhansky–Muller Incompatibilities in a Continent–Island Model
The maximum rate of gene flow is limited by exogeneous selection, and there are two distinct mechanisms that drive DMI evolution in parapatry, selection against immigrants in a heterogeneous environment and selection against hybrids due to the incompatibility.