Table 3.
Total (p-value < 0.05) and filtered (q-value < 0.05) differentially expressed genes (DEGs), including the number of up- and down-regulated DEGs in peach and almond genes in the seven comparisons performed comparing control (A) and infected GF305 peach showing strong sharka symptoms (B); control GF305 (C) grafted with Garrigues almond (F) and infected GF305 grafted (D) with Garrigues (G); control GF305 grafted with Garrigues almond and later inoculated with PPV (E). In bold type: the evaluated plant material, GF305 = peach; Garrigues = almond.
| Comparison of Transcriptomes | Sample Comparison | Total Identified Genes | Total Tested Genes | Total DEG Genes | Filtered DEG Genes | DEG Up | DEG Down |
|---|---|---|---|---|---|---|---|
| Effect of PPV inoculation/infection | |||||||
| GF305 + PPV vs. GF305 Control | B vs. A | 27,121 | 19,335 | 1102 | 44 | 9 | 35 |
| GF305 + PPV + Garrigues vs. GF305 Control + Garrigues | D vs. C | 27,036 | 18,832 | 548 | 29 | 20 | 9 |
| GF305 + PPV + Garrigues vs. GF305 Control + Garrigues | G vs. F | 27,203 | 18,808 | 439 | 0 | - | - |
| Effect of almond grafting | |||||||
| GF305 Control vs. GF305 Control + Garrigues | C vs. A | 27,011 | 19,906 | 823 | 18 | 10 | 8 |
| Effect of PPV infection and almond Grafting | |||||||
| GF305 + PPV + Garrigues vs. GF305 + PPV | D vs. B | 27,143 | 20,643 | 1163 | 31 | 23 | 8 |
| GF305 Control + Garrigues + PPV vs. GF305 + PPV | E vs. B | 27,131 | 19,362 | 1113 | 47 | 30 | 17 |
| Effect of shifting the order of inoculation and grafting | |||||||
| GF305 Control + Garrigues + PPV vs. GF305 + PPV + Garrigues | E vs. D | 26,589 | 18,865 | 627 | 28 | 6 | 22 |
| Total | 5815 | 197 | 98 | 99 |