Edwards, P. D.; Satheesh, V.; Krebs, C. J.; Kenney, A. J.; Boonstra, R.

Vole and lemming population cycles are an enigma in ecology. Decades of field observations and experimental manipulations have revealed that cycles cannot always be explained by extrinsic factors in the environment, including food availability or predator numbers. Thus, it has been proposed that intrinsic mechanisms, such as adaptive alterations in phenotype during different phases of the cycle, drive population dynamics. However, the mechanisms underlying such phenotypic changes have not been elucidated. We test the hypothesis that epigenetic changes occur over population cycles by comparing whole epigenome DNA methylation changes in brain tissue collected from northern red-backed voles (Clethrionomys rutilus) in a wild, naturally cycling population during the peak, decline, and low years. Overall, the greatest number of differentially methylated CG sites (DMCs) and differentially methylated regions (DMRs) were detected in comparisons between voles from the peak phase and low phase of the cycle. We highlight methylation differences in the promoter region of ATP synthase subunit c (Atp5g3) and an intron of insulin-like growth factor 1 receptor (Igf1R), which may be associated with growth, development, and bioenergetics. There were additional changes in the promoters of members of the cytochrome P450 enzyme family, including Cyp1a1, associated with estrogen metabolism, as well as the promoter of macrophage migration inhibitory factor (Mif), and in an exon of serum/glucocorticoid regulated kinase (Sgk1), which may link changes in stressors to direct brain changes. Our study is the first interrogation into broad epigenetic changes associated with natural population cycle phase in a wild mammal.