A linkage disequilibrium-based statistical test for Genome-Wide Epistatic Selection Scans in structured populations.

ABSTRACT: The quest for signatures of selection using single nucleotide polymorphism (SNP) data has proven efficient to uncover genes involved in conserved and/or adaptive molecular functions, but none of the statistical methods were designed to identify interacting alleles as targets of selective processes. Here, we propose a statistical test aimed at detecting epistatic selection, based on a linkage disequilibrium (LD) measure accounting for population structure and heterogeneous relatedness between individuals. SNP-based ([Formula: see text]) and window-based ([Formula: see text]) statistics fit a Student distribution, allowing to test the significance of correlation coefficients. As a proof of concept, we use SNP data from the Medicago truncatula symbiotic legume plant and uncover a previously u

SUBMITTER: Boyrie L 

PROVIDER: S-EPMC7852595 | biostudies-literature | 2021 Jan

REPOSITORIES: biostudies-literature