Altogether four ARNTL2 variants were associated suggestively with depression accompanied by fatigue, with the best evidence being for rs7304939 (P = 0.023, OR = 0.46), and one variant rs2289709 with depression accompanied by early morning awakening (P = 0.02, OR = 0.37) and fatigue (P = 0.014, OR = 0.47). Here, BMAL2 is linked to major depressive disorder.