A Genome-Wide Association Study for Susceptibility to Visual Experience-Induced Myopia

Abstract

Purpose

The rapid rise in prevalence over recent decades and high heritability of myopia suggest a role for gene–environment (G × E) interactions in myopia susceptibility. Few such G × E interactions have been discovered to date. We aimed to test the hypothesis that genetic analysis of susceptibility to visual experience-induced myopia in an animal model would identify novel G × E interaction loci.

Methods

Chicks aged 7 days ( n = 987) were monocularly deprived of form vision for 4 days. A genome-wide association study (GWAS) was carried out in the 20% of chicks most susceptible and least susceptible to form deprivation ( n = 380). There were 304,963 genetic markers tested for association with the degree of induced axial elongation in treated versus control eyes (A-scan ultrasonography). A GWAS candidate region was examined in the following three human cohorts: CREAM consortium ( n = 44,192), UK Biobank ( n = 95,505), and Avon Longitudinal Study of Parents and Children (ALSPAC; n = 4989).

Results

A locus encompassing the genes PIK3CG and PRKAR2B was genome-wide significantly associated with myopia susceptibility in chicks (lead variant rs317386235, P = 9.54e−08). In CREAM and UK Biobank GWAS datasets, PIK3CG and PRKAR2B were enriched for strongly-associated markers (meta-analysis lead variant rs117909394, P = 1.7e−07). In ALSPAC participants, rs117909394 had an age-dependent association with refractive error (−0.22 diopters [D] change over 8 years, P = 5.2e−04) and nearby variant rs17153745 showed evidence of a G × E interaction with time spent reading (effect size −0.23 D, P = 0.022).

Conclusions

This work identified the PIK3CG- PRKAR2B locus as a mediator of susceptibility to visually induced myopia in chicks and suggests a role for this locus in conferring susceptibility to myopia in human cohorts.