Table 3.
Predicted gene models and effectors.
| Features | Phytophthora cactorum | Phytophthora idaei | |||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Fragaria ×ananassa crowns | Fragaria ×ananassa fruit | Malus ×domestica | Rubus idaeus | ||||||||||||||||||
| P414 | 12–420 | 15–13 | 15–7 | 2003–3 | 4032 | 4040 | P404 | P415 | P416 | P421 | PC13/15 | 11–40 | 17–21 | 62471 | P295 | R36/14 | SCRP370 | SCRPP371 | SCRP376 | ||
| Genes | 29,552 | 25,444 | 25,942 | 25,855 | 28,950 | 26,062 | 28,670 | 34,978 | 26,042 | 28,623 | 25,566 | 25,771 | 28,046 | 27,869 | 28,767 | 25,627 | 29,124 | 27,354 | 24,856 | 24,924 | |
| Proteins | 29,913 | 26,265 | 26,779 | 26,646 | 29,811 | 26,859 | 29,557 | 35,812 | 26,850 | 29,425 | 26,155 | 26,641 | 28,851 | 28,599 | 29,620 | 26,368 | 29,955 | 27,951 | 25,449 | 25,557 | |
| Secreted | 1,887 | 1,658 | 1,686 | 1,668 | 1,758 | 1,707 | 1,758 | 2,056 | 1,719 | 1,770 | 1,345 | 1,697 | 1,723 | 1,790 | 1,771 | 1,666 | 1,799 | 1,610 | 1,540 | 1,522 | |
| EffectorP | 507 | 472 | 470 | 475 | 525 | 502 | 522 | 660 | 499 | 537 | 381 | 484 | 511 | 532 | 520 | 476 | 543 | 481 | 456 | 443 | |
| CWDE | 281 | 222 | 234 | 220 | 222 | 222 | 225 | 261 | 224 | 219 | 215 | 227 | 222 | 237 | 233 | 229 | 217 | 200 | 194 | 195 | |
| RxLR | 158 | 134 | 134 | 136 | 136 | 139 | 137 | 135 | 151 | 144 | 135 | 143 | 132 | 144 | 146 | 142 | 146 | 146 | 144 | 138 | |
| CRN | 127 | 85 | 89 | 88 | 74 | 94 | 88 | 84 | 93 | 88 | 74 | 91 | 70 | 73 | 74 | 93 | 97 | 69 | 59 | 62 | |
| TFs | 1,215 | 904 | 913 | 921 | 1,011 | 924 | 978 | 1,064 | 946 | 1,007 | 861 | 932 | 968 | 952 | 1,003 | 928 | 1,038 | 905 | 884 | 862 | |
| MAMPs | Elicitin | 43 | 43 | 42 | 46 | 44 | 43 | 47 | 43 | 46 | 43 | 43 | 44 | 44 | 45 | 44 | 44 | 43 | 37 | 32 | 38 |
| TGA | 14 | 13 | 13 | 13 | 13 | 13 | 13 | 13 | 12 | 13 | 11 | 13 | 12 | 13 | 13 | 13 | 12 | 12 | 12 | 13 | |
| Cutinase | 5 | 5 | 5 | 5 | 5 | 5 | 5 | 5 | 5 | 5 | 5 | 5 | 5 | 5 | 5 | 5 | 5 | 2 | 3 | 2 | 2 |
| NLP | 22 | 29 | 29 | 28 | 28 | 28 | 26 | 23 | 29 | 27 | 27 | 26 | 24 | 32 | 32 | 17 | 32 | 11 | 19 | 14 | 14 |
| Pcf | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 4 | 4 | 4 |
| GI | 21 | 15 | 16 | 18 | 14 | 16 | 15 | 15 | 17 | 16 | 14 | 15 | 18 | 17 | 15 | 19 | 13 | 8 | 10 | 11 | 11 |
| Protease inhibitors | Kasal | 17 | 17 | 17 | 17 | 16 | 16 | 15 | 16 | 17 | 16 | 15 | 16 | 17 | 16 | 16 | 16 | 16 | 13 | 15 | 14 |
| Cath. | 3 | 3 | 3 | 3 | 3 | 3 | 4 | 4 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 4 | 3 | 3 | 3 | 3 | |
| Cyst. | 2 | 1 | 1 | 1 | 2 | 1 | 2 | 2 | 1 | 2 | 1 | 1 | 2 | 1 | 2 | 1 | 2 | 1 | 1 | 1 | |
Total number of gene models and the predicted proteins that they encode are shown. Numbers of secreted proteins, secreted cell wall degrading enzymes (CWDE), RxLR and crinkler (CRN) family cytoplasmic effectors are shown, along with predicted transcription factors (TFs). Host defence triggering (MAMP) family sterol binding (Elicitn) and transglutanimase (TGA) proteins are shown as well as apoplastic effector families including necrosis inducing proteins (NLP), Phytophthora cactorum factor (PcF), and protease inhibitors (kazal-, cathepsin-, and cystatin-acting).