An approximate sampling formula under genetic hitchhiking

DOI10.1214/105051606000000114zbMATH Open1115.92044arXivmath/0503485OpenAlexW3104028333WikidataQ60500187 ScholiaQ60500187MaRDI QIDQ997947FDOQ997947

Alison Etheridge, Anton Wakolbinger, Peter Pfaffelhuber

Publication date: 8 August 2007

Published in: The Annals of Applied Probability (Search for Journal in Brave)

Abstract: For a genetic locus carrying a strongly beneficial allele which has just fixed in a large population, we study the ancestry at a linked neutral locus. During this ``selective sweep the linkage between the two loci is broken up by recombination and the ancestry at the neutral locus is modeled by a structured coalescent in a random background. For large selection coefficients $alpha$ and under an appropriate scaling of the recombination rate, we derive a sampling formula with an order of accuracy of $mathcalO((logalpha{)}^{-2})$ in probability. In particular we see that, with this order of accuracy, in a sample of fixed size there are at most two nonsingleton families of individuals which are identical by descent at the neutral locus from the beginning of the sweep. This refines a formula going back to the work of Maynard Smith and Haigh, and complements recent work of Schweinsberg and Durrett on selective sweeps in the Moran model.

Full work available at URL: https://arxiv.org/abs/math/0503485

Recommendations

• Selective sweep and the size of the hitchhiking set
• Approximating genealogies for partially linked neutral loci under a selective sweep
• Evolution of the ancestral recombination graph along the genome in case of selective sweep
• Approximating selective sweeps
• The pattern of genetic hitchhiking under recurrent mutation

zbMATH Keywords

diffusion approximationYule processesstructured coalescentselective sweepsrandom ancestral partitionrandom background

Mathematics Subject Classification ID

Applications of Brownian motions and diffusion theory (population genetics, absorption problems, etc.) (60J70) Genetics and epigenetics (92D10) Problems related to evolution (92D15) Applications of branching processes (60J85) Branching processes (Galton-Watson, birth-and-death, etc.) (60J80) Processes in random environments (60K37)

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Cited In (27)

• Selective sweep and the size of the hitchhiking set
• Simulation of `hitch-hiking' genealogies
• An eco-evolutionary approach of adaptation and recombination in a large population of varying size
• A reversible allelic partition process and Pitman sampling formula
• Quenched law of large numbers for branching Brownian motion in a random medium
• Tree-valued Fleming-Viot dynamics with mutation and selection
• Genealogies of two linked neutral loci after a selective sweep in a large population of stochastically varying size
• Approximating selective sweeps
• Developments in coalescent theory from single loci to chromosomes
• Evolution of the ancestral recombination graph along the genome in case of selective sweep
• Stochastic dynamics of adaptive trait and neutral marker driven by eco-evolutionary feedbacks
• An asymptotic sampling formula for the coalescent with recombination
• Analysis and rejection sampling of Wright-Fisher diffusion bridges
• The joint allele frequency spectrum of multiple populations: a coalescent theory approach
• Statistics of Natural Populations. III. Sequential Sampling Plans for the Estimation of Gene Frequencies
• Coalescence in a random background.
• The ancestral selection graph under strong directional selection
• The tree length of an evolving coalescent
• A coalescent model for the effect of advantageous mutations on the genealogy of a population
• Genetic hitchhiking in spatially extended populations
• Fixation of a deleterious allele under mutation pressure and finite selection intensity
• Random partitions approximating the coalescence of lineages during a selective sweep
• Selective sweeps for recessive alleles and for other modes of dominance
• The effect of recurrent mutation on the linkage disequilibrium under a selective sweep
• Approximating genealogies for partially linked neutral loci under a selective sweep
• The fixation probability and time for a doubly beneficial mutant
• The fixation probability of two competing beneficial mutations

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