Cytosine methylation and hydroxymethylation mark DNA for elimination in Oxytricha trifallax.

A highly significant 20 bp-long pyrimidine-rich motif (MEME e-value = 2.8e-236) was identified in the methylation cohort chromosomes and not detected in control cohorts of eleven MAC chromosomes lacking enrichment in 46 h DNA (selected from the center of the distribution, the middle group in Figure 4c ) or enriched in vegetative DNA (bottom group in Figure 4c ).

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Contig10532 (unknown protein) showed a possible trend toward reduced methylation but was not statistically significant in this experiment, and methylation levels of Contig11442.0 (6× RRM-containing) were unaffected by decitabine treatment, although it is possible that higher doses of drug or longer treatment length might have produced an effect.

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For columns labeled 'bisulfite-qPCR' and '40 h dAza demethylated?', bold font denotes statistically significant effects relative to vegetative or untreated controls (Student's 1-tailed t -test for unequal variance, p < 0.05), while a 'yes' indicates an effect that was observed but did not reach statistical significance. 'n/a' indicates that the test was not performed.

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