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

From: Genotype-specific suppression of multiple defense pathways in apple root during infection by Pythium ultimum

 

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

  1. 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
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