Table 1. DEGs identified in a pairwise comparison among genotypes, plant tissues and treatments across the 12 RNA-Seq libraries.

Experimental comparison	Genotypes	Tissues	Treatments	N° of DEGs	Up-regulated DEGs	Down-regulated DEGs
1	Pérola x BAT 477	Root	All	21	1	20
2	Pérola x BAT 477	Leaf	All	138	64	74
3.1	BAT 477	Root	T0 x T75	192	177	15
3.2	BAT 477	Root	T75 x T150	3	0	3
3.3	BAT 477	Root	T0 x T150	681	567	114
4.1	Pérola	Root	T0 x T75	123	110	13
4.2	Pérola	Root	T75 x T150	31	13	18
4.3	Pérola	Root	T0 x T150	403	336	67
5.1	BAT 477	Leaf	T0 x T75	2	2	0
5.2	BAT 477	Leaf	T75 x T150	14	13	1
5.3	BAT 477	Leaf	T0 x T150	251	206	45
6.1	Pérola	Leaf	T0 x T75	0	0	0
6.2	Pérola	Leaf	T75 x T150	25	25	0
6.3	Pérola	Leaf	T0 x T150	208	149	59
7	Pérola x BAT 477	Root	T0	46	20	26
8	Pérola x BAT 477	Root	T75	17	7	10
9	Pérola x BAT 477	Root	T150	4	1	3
10	Pérola x BAT 477	Leaf	T0	76	41	35
11	Pérola x BAT 477	Leaf	T75	97	31	66
12	Pérola x BAT 477	Leaf	T150	57	25	32