TABLE 5.
Effector gene predictions in resequenced isolates of Phytophthora fragariae and Phytophthora rubi.
| Phytophthora fragariae | Phytophthora rubi | |||||||||||||
| A4 | BC-1 | BC-16 | BC-23 | NOV-5 | NOV-9 | NOV-27 | NOV-71 | NOV-77 | ONT-3 | SCRP245 | SCRP249 | SCRP324 | SCRP333 | |
| Secreted proteinsa | 3,637 | 3,601 | 4,217 | 3,611 | 3,626 | 3,637 | 3,690 | 3,633 | 3,620 | 3,658 | 3,581 | 3,697 | 3,683 | 3,832 |
| RxLR HMMb | 194 | 194 | 218 | 188 | 196 | 186 | 183 | 191 | 166 | 191 | 196 | 197 | 195 | 207 |
| RxLR-EER Regexc | 178 | 184 | 208 | 176 | 186 | 174 | 172 | 182 | 150 | 178 | 185 | 188 | 176 | 188 |
| RxLR Regex | 371 | 367 | 445 | 364 | 370 | 356 | 369 | 374 | 341 | 367 | 370 | 363 | 350 | 359 |
| Final RxLR effectorsd | 410 (935) | 405 (919) | 486 (1,052) | 402 (928) | 408 (918) | 397 (951) | 405 (899) | 412 (931) | 378 (934) | 403 (898) | 407 (882) | 407 (882) | 395 (861) | 410 (826) |
| CRN LFLAK HMMc | 85 | 83 | 114 | 86 | 84 | 82 | 87 | 90 | 86 | 90 | 90 | 156 | 93 | 154 |
| CRN DWL HMMc | 95 | 87 | 121 | 96 | 91 | 96 | 93 | 101 | 83 | 90 | 87 | 139 | 102 | 142 |
| Final CRNsd,e | 55 (68) | 53 (59) | 82 (87) | 55 (62) | 53 (67) | 50 (61) | 57 (63) | 59 (71) | 62 (75) | 61 (74) | 60 (68) | 128 (132) | 71 (85) | 128 (134) |
| Apoplastic effectorsd,f | 991 (3,896) | 1,002 (3,798) | 1,274 (4,757) | 980 (3,630) | 986 (3,913) | 1,007 (3,983) | 1,011 (3,708) | 1,007 (3,911) | 1,010 (3,922) | 982 (3,709) | 984 (3,522) | 1,017 (3,266) | 1,059 (3,607) | 1,090 (3,268) |
aSignalP: Nielsen et al., 1997; Bendtsen et al., 2004; Petersen et al., 2011 and Phobius: Käll et al., 2004. bWhisson et al. (2007). cArmitage et al. (2018). dValues in brackets include low confidence gene models from open reading frames. eBoth LFLAK and DWL HMM models present (Armitage et al., 2018). fApoplastP: Sperschneider et al. (2018).