Figure 2

Epigenetic alteration induced by tissue culture in rice. (a) DNA methylation level of CG, CHG and total (adding up the two) at randomly sampled 5’-CCGG sites by methylation-sensitive amplification polymorphism (MSAP) in each of the six rice genotypes as in Figure 1. (b) Diagrammatic illustration of the genotypic differences between the pairwise comparisons for “Total methylation level” shown in (a). (c), (d) and (e) alteration in four major types methylation patterns, CG hyper and CHG hyper, CG hypo and CHG hypo, and collective alteration (adding up the four types) at randomly sampled 5’-CCGG sites by methylation-sensitive amplification polymorphism (MSAP) in each of the six rice genotypes as in Figure 1. (f) Diagrammatic illustration of the genotypic differences between the pairwise comparisons for “Total hypermethylation alteration” shown in (c). (g) Diagrammatic illustration of the genotypic differences between the pairwise comparisons for “Total hypomethylation alteration” shown in (d). In all cases, solid and dashed lines indicate statistically significant (p < 0.05) and insignificant (p > 0.05) differences, respectively, based on one-way ANOVA test (seeMethods).