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Fig. 3 | BMC Genomics

Fig. 3

From: Elevated transcription of transposable elements is accompanied by het-siRNA-driven de novo DNA methylation in grapevine embryogenic callus

Fig. 3

Transcription of TEs in grapevine EC, compared with leaf. Volcano plot of gene differential expression analysis for A: Genes and B: TEs. Features significantly DE (p < 0.05) with |Log2 Fold Change (EC/Leaf)| > 2 are highlighted in red. C: Counts of TE families with relatively higher expression levels in each tissue type. D: m-a plot of TE families differing significantly in expression between leaf & EC tissue, coloured by TE superfamily. E: GO terms enriched among DE genes highly expressed in EC relative to leaf, grouped by similarity. Enriched terms grouping under “DNA methylation” are shown in the expansion to the right. F: m-a plot of gene expression (expression in EC / expression in leaf ). Genes not passing the significance threshold (adjusted p < 0.05) are shown in grey. DNA methyltransferase genes are highlighted in red where significantly DE and in orange where no significant difference is observed. G: Relative expression of DE TEs between tissue types, compared with the relative expression of co-located DE genes

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