A, Design of the heat-entrainment experiment. Seven-day-old A. thaliana seedlings were subjected to standard conditions, heat cycle entrainment (day 37°C and night 21°C, 12/12 h), heat cycle entrainment +3 days recovery at 21°C, and heat cycle entrainment +3 days recovery +2nd heat treatment (day 37°C,12 h). Heat entrainment was performed for 1, 3, 5 or 10 cycles. B, Transcript levels of L5-GUS and SDC loci during recovery from heat-induced release of silencing. Bars represent means ± SE as a log2 ratio with the non-treated control condition (i.e., control = 0); replicated samples were pooled from 40–60 whole seedlings. C, Kinetics of transcript level re-silencing of the partially silent genes during the recovery phase following a 5 heat-cycle entrainment. Dots represent mean gene expression as a log2 ratio with the non-treated control condition (i.e., control = 0); replicated samples were pooled from 40–60 whole seedlings.