Demographic inference for spatially heterogeneous populations using long shared haplotypes

被引：0

作者：

Forien, Raphael ^{[1
]}

Ringbauer, Harald ^{[2
]}

Coop, Graham ^{[3
]}

机构：

[1] Ctr INRAE PACA, INRAE BioSP, 228 route aerodrome, F-84914 Avignon 9, France

[2] Max Planck Inst Evolutionary Anthropol, Dept Archaeogenet, Deutsch Pl 6, D-04103 Leipzig, Germany

[3] Univ Calif Davis, Ctr Populat Biol, Dept Evolut & Ecol, 2320 Storer Hall, Davis, CA 95616 USA

来源：

THEORETICAL POPULATION BIOLOGY | 2024年 / 159卷

基金：

美国国家卫生研究院;

关键词：

Population genetics; Spatial A-Fleming-Viot process; Spatial coalescent; Segments of shared haplotypes; Skew Brownian motion; Isolation by distance; STEPPING STONE MODEL; DETECTING IDENTITY; STATISTICS; MIGRATION; DISTANCE; GENETICS; SEGMENTS;

D O I：

10.1016/j.tpb.2024.03.002

中图分类号：

Q14 [生态学（生物生态学）];

学科分类号：

071012 ; 0713 ;

摘要：

We introduce a modified spatial Lambda-Fleming-Viot process to model the ancestry of individuals in a population occupying a continuous spatial habitat divided into two areas by a sharp discontinuity of the dispersal rate and effective population density. We derive an analytical formula for the expected number of shared haplotype segments between two individuals depending on their sampling locations. This formula involves the transition density of a skew diffusion which appears as a scaling limit of the ancestral lineages of individuals in this model. We then show that this formula can be used to infer the dispersal parameters and the effective population density of both regions, using a composite likelihood approach, and we demonstrate the efficiency of this method on a range of simulated data sets.

引用

页码：108 / 124

页数：17

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