Jasmonates and Histone deacetylase 6 activate Arabidopsis genome-wide histone acetylation and methylation during the early acute stress response

Table 2 Overrepresentation of transposable element superfamilies in H4ac- and H3K27me3-associated loci. Only statistically overrepresented families shown

Histone marker	TE Superfamily	No. TEs in A. thaliana	Condition
			WT +MeJA			axe1-5			axe1-5 +MeJA
			No. of TEs in condition	Percentage representation (%)	p-value (Hypergeometric test)	No. of TEs in condition	Percentage representation (%)	p-value (Hypergeometric test)	No. of TEs in condition	Percentage representation (%)	p-value (Hypergeometric test)
H4ac	DNA	1829	0	0.0	NSS	1	0.1	NSS	1	0.1	NSS
	DNA/En-Spm	941	5	0.5	1.61E−03	9	1.0	1.80E−02	13	1.4	4.82E−03
	LINE/L1	1366	8	0.6	2.50E−05	30	2.2	6.07E−14	45	3.3	4.94E−21
	LTR/Copia	1781	5	0.3	2.28E−02	37	2.1	2.03E−16	51	2.9	3.15E−21
	SINE	131	0	0.0	NSS	3	2.3	1.80E−02	3	2.3	4.51E−02
	Unassigned	129	2	1.6	6.41E−03	8	6.2	7.77E−08	15	11.6	2.35E−15
	Total	31,189	20			88			128
H3K27me3	DNA	1829	3	0.2	NSS	11	0.6	1.12E−06	12	0.7	2.11E−03
	DNA/En-Spm	941	2	0.2	NSS	4	0.4	1.51E−02	5	0.5	NSS
	LINE/L1	1366	4	0.3	NSS	2	0.1	NSS	17	1.2	4.43E−08
	LTR/Copia	1781	5	0.3	NSS	7	0.4	1.86E−03	17	1.0	1.83E−06
	SINE	131	0	0.0	NSS	0	0.0	NSS	0	0.0	NSS
	Unassigned	129	3	2.3	9.21E−04	2	1.6	7.76E−03	1	0.8	NSS
	Total	31,189	17			26			52

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