학술논문

Forward-in-Time, Spatially Explicit Modeling Software to Simulate Genetic Lineages Under Selection
Document Type
Article
Source
Evolutionary Bioinformatics. Issue S2, p27-39. 13 p.
Subject
population genetics
spatially explicit simulation
MHC lineages
HLA
balancing selection
Language
英文
ISSN
1176-9343
Abstract
SELECTOR is a software package for studying the evolution of multiallelic genes under balancing or positive selection while simulating complex evolutionary scenarios that integrate demographic growth and migration in a spatially explicit population framework. Parameters can be varied both in space and time to account for geographical, environmental, and cultural heterogeneity. SELECTOR can be used within an approximate Bayesian computation estimation framework. We first describe the principles of SELECTOR and validate the algorithms by comparing its outputs for simple models with theoretical expectations. Then, we show how it can be used to investigate genetic differentiation of loci under balancing selection in interconnected demes with spatially heterogeneous gene flow. We identify situations in which balancing selection reduces genetic differentiation between population groups compared with neutrality and explain conflicting outcomes observed for human leukocyte antigen loci. These results and three previously published applications demonstrate that SELECTOR is efficient and robust for building insight into human settlement history and evolution.