Hd6 repressed FT-like genes and acted downstream of Hd1 under LD conditions but did not control circadian clocks. A to D, Bioluminescence analysis of cab1R:LUC expression in constant darkness (DD; A) and constant light (LL; C) after 5 d of light/dark entrainment. Period lengths and relative amplitude errors in DD (B) and in LL (D) were calculated from luminescence data by a fast Fourier transform-nonlinear least squares method. Five to 10 seedlings of each line were assessed. The experiments were repeated three times. Hd6 and hd6 lines were T3 (or T4) progeny lines from a cross between a japonica cultivar with the Hd6 allele and another japonica cultivar with the hd6 allele carrying the cab1R:LUC gene. Hd6ox lines were from a cross between Hd6ox lines and cab1R:LUC lines. E to K, Expression levels of Hd6 (E), OsLHY (F), OsPRR1 (G), OsGI (H), Hd1 (I), Hd3a (J), and RFT1 (K) in Nipponbare. NIL(Hd6) and two Hd6ox lines were measured by real-time quantitative RT-PCR. Data were normalized against ubiquitin expression. Means and sd were plotted from three biological replicates. Each plant was grown under LD (14.5 h of light/9.5 h of dark) conditions for 60 d. Young leaves from three plants were collected every 2 h after dawn. WT, Wild type.