Fig. S1 Lignin deposition in wild-type (WT) arabidopsis plants and the three ectopic lignification mutants, pom1, eli1 and det3. (a) Phloroglucinol-HCl-stained plants at growth stage 1.03 (Boyes et al., 2001) showing rosette leaves (upper panel) and hypocotyls (lower panel). (b) Phloroglucinol-HCl-stained whole seedlings, 7 d old, germinated and grown in the dark. Scale bars, 200 ?m, 100 ?m and 500 ?m, respectively. Fig. S2 Northern blot analysis of circadian transcript abundance levels of eight genes encoding enzymes involved in lignification, in stage 1.03 rosette leaves (Boyes et al., 2001) of the three ectopic lignification mutants and wild-type arabidopsis plants. After entrainment to a 12 h light/12 h dark cycle, plants were grown under continuous 24 h light for 48 h. Time 0 indicates the time at which the continuous light period commenced. Grey and white boxes correspond to subjective dark and subjective light time periods, respectively. Upper panels for each gene, for each genotype, show the autoradiogram for the northern blot, whereas the lower panels show the ethidium bromide-stained membrane following transfer of RNA, but prior to hybridisation as per Fig. 2. Fig. S3 Summary of the circadian transcript abundance for eight lignin biosynthetic genes in the three ectopic lignification mutants, expressed as a percentage of wild-type transcript abundance, as determined by quantitative analysis of the northern blot data presented in Fig. S1. Band intensities from the northern blots were quantified and adjusted relative to the amount of RNA loaded. The ratio of mutant to wildtype transcript abundance at each time point was used to calculate the mean ratio and associated standard error (error bar) over the duration of the experiment. The mean value also provides a relative indicator of the cumulative total of transcript abundance over the course of the experiment. Starred bars are significantly different from wild type (Student?s t-test, P < 0.05), whereas those with a hash sign are significantly different from pom1 (Student?s t-test, P < 0.05) (n = 12 per mean).

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