Table 1.

Number of differentially expressed genes (DEGs) identified at each of three timepoints in two genotypes during apple root response to P. ultimum infection

	B.9			G.935
	24 hpi	48 hpi	72 hpi	24 hpi	48 hpi	72 hpi
Total DEGs	484	2309	1207	589	559	141
% of all apple genes (from apple genome v3.0.a1)	0.77	3.66	1.91	0.93	0.89	0.22
Upregulated DEGs	453	1147	1090	439	517	111
Downregulated DEGs	31	1162	117	150	42	30
Ratio of up- and downregulated	14.61	0.99	9.32	2.93	12.31	3.7
Uncharacterized (Nr)	70	412	163	88	60	20
% among all DEGs	14.5	17.8	13.5	14.9	10.7	14.2

The DEG numbers were calculated based on the analyses as described in M&M. The value of log₂FC ≥ 1 and p-adj values ≤ 0.05 were used as selection criteria. hpi hours post inoculation, Nr NCBI non-redundant protein sequences