| Clade 1 | ||||||||||||||
| Species Name | 60S-RPL10 | B-Tub | Eno | HSP90 | ITS | 28s-rRNA | Tig | EF-1a | cox1 | cox2 | nad1 | nad2 | rps10 | secY |
| Phytophthora andina | 1 | 1 | 1 | 1 | 4 | 1 | 1 | 1 | 1 | 3 | 0 | 3 | 2 | 3 |
| Phytophthora cactorum | 1 | 1 | 1 | 2 | 14 | 2 | 1 | 1 | 1 | 4 | 0 | 6 | 2 | 2 |
| Phytophthora clandestina | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora hedraiandra | 1 | 1 | 1 | 1 | 3 | 1 | 1 | 1 | 1 | 3 | 0 | 1 | 1 | 1 |
| Phytophthora idaei | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora infestans | 1 | 1 | 1 | 1 | 17 | 1 | 1 | 1 | 2 | 7 | 0 | 2 | 3 | 4 |
| Phytophthora ipomoeae | 2 | 1 | 1 | 2 | 2 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora iranica | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora mirabilis | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 2 | 1 | 0 | 2 | 2 | 1 |
| Phytophthora nicotianae | 2 | 2 | 2 | 1 | 17 | 2 | 1 | 3 | 1 | 8 | 1 | 1 | 2 | 2 |
| Phytophthora phaseoli | 2 | 2 | 1 | 2 | 2 | 2 | 1 | 2 | 2 | 2 | 0 | 1 | 1 | 1 |
| Phytophthora pseudotsugae | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora tentaculata | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Clade 2 | ||||||||||||||
| Species Name | 60S-RPL10 | B-Tub | Eno | HSP90 | ITS | 28s-rRNA | Tig | EF-1a | cox1 | cox2 | nad1 | nad2 | rps10 | secY |
| Phytophthora bisheria | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 2 | 1 | 0 | 0 | 2 | 2 |
| Phytophthora botryosa | 1 | 1 | 1 | 1 | 3 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora capensis | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 1 | 1 | 0 | 1 | 0 | 0 | 0 |
| Phytophthora capsici | 4 | 2 | 1 | 1 | 22 | 3 | 1 | 1 | 3 | 10 | 0 | 9 | 6 | 11 |
| Phytophthora citricola | 2 | 1 | 1 | 1 | 16 | 2 | 1 | 1 | 2 | 10 | 1 | 2 | 1 | 2 |
| Phytophthora citrophthora | 1 | 1 | 1 | 1 | 14 | 1 | 1 | 1 | 2 | 5 | 0 | 2 | 2 | 1 |
| Phytophthora colocasiae | 1 | 1 | 1 | 1 | 5 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora glovera | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 2 | 2 | 2 |
| Phytophthora inflata | 0 | 1 | 0 | 1 | 1 | 1 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 |
| Phytophthora meadii | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora mengei | 0 | 1 | 0 | 0 | 2 | 0 | 0 | 1 | 2 | 1 | 1 | 1 | 1 | 1 |
| Phytophthora mexicana | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora multivesiculata | 1 | 2 | 1 | 2 | 1 | 2 | 1 | 1 | 0 | 2 | 0 | 1 | 1 | 1 |
| Phytophthora multivora | 0 | 3 | 0 | 0 | 3 | 0 | 0 | 3 | 1 | 1 | 3 | 1 | 0 | 0 |
| Phytophthora plurivora | 0 | 2 | 0 | 1 | 6 | 1 | 0 | 1 | 1 | 4 | 1 | 1 | 1 | 1 |
| Phytophthora siskiyouensis | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 1 | 2 | 0 | 1 | 1 | 1 |
| Phytophthora tropicalis | 2 | 1 | 1 | 1 | 7 | 1 | 1 | 1 | 0 | 3 | 0 | 3 | 1 | 3 |
| Clade 3 | ||||||||||||||
| Species Name | 60S-RPL10 | B-Tub | Eno | HSP90 | ITS | 28s-rRNA | Tig | EF-1a | cox1 | cox2 | nad1 | nad2 | rps10 | secY |
| Phytophthora ilicis | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 1 | 2 | 0 | 1 | 1 | 1 |
| Phytophthora nemorosa | 1 | 1 | 1 | 1 | 2 | 2 | 1 | 1 | 1 | 2 | 0 | 1 | 1 | 1 |
| Phytophthora pseudosyringae | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 1 | 2 | 0 | 1 | 1 | 1 |
| Phytophthora psychrophila | 1 | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Clade 4 | ||||||||||||||
| Species Name | 60S-RPL10 | B-Tub | Eno | HSP90 | ITS | 28s-rRNA | Tig | EF-1a | cox1 | cox2 | nad1 | nad2 | rps10 | secY |
| Phytophthora megakarya | 1 | 1 | 2 | 1 | 3 | 1 | 1 | 1 | 1 | 1 | 0 | 2 | 1 | 2 |
| Phytophthora palmivora | 2 | 2 | 1 | 1 | 3 | 2 | 1 | 1 | 1 | 1 | 0 | 2 | 1 | 1 |
| Phytophthora quercetorum | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Clade 5 | ||||||||||||||
| Species Name | 60S-RPL10 | B-Tub | Eno | HSP90 | ITS | 28s-rRNA | Tig | EF-1a | cox1 | cox2 | nad1 | nad2 | rps10 | secY |
| Phytophthora heveae | 2 | 2 | 1 | 2 | 3 | 1 | 1 | 1 | 2 | 1 | 0 | 2 | 2 | 1 |
| Phytophthora katsurae | 2 | 1 | 1 | 1 | 3 | 2 | 1 | 1 | 1 | 1 | 0 | 2 | 2 | 1 |
| Phytophthora sp. "novaeguine" | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 1 | 0 | 1 | 1 | 1 |
| Clade 6 | ||||||||||||||
| Species Name | 60S-RPL10 | B-Tub | Eno | HSP90 | ITS | 28s-rRNA | Tig | EF-1a | cox1 | cox2 | nad1 | nad2 | rps10 | secY |
| Phytophthora asparagi | 1 | 1 | 1 | 1 | 3 | 1 | 1 | 1 | 2 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora sp. "canalensis" | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora sp. "erwinii" | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora gonapodyides | 1 | 1 | 1 | 1 | 5 | 1 | 1 | 1 | 1 | 2 | 0 | 1 | 1 | 1 |
| Phytophthora humicola | 1 | 1 | 1 | 1 | 2 | 2 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora sp. "hungarica" | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 1 | 0 | 0 |
| Phytophthora inundata | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 2 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora sp. "lacrimae" | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 1 | 0 | 1 | 0 | 0 |
| Phytophthora lacustris | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Phytophthora megasperma | 2 | 1 | 1 | 1 | 10 | 1 | 1 | 1 | 1 | 2 | 0 | 3 | 1 | 1 |
| Phytophthora sp. "personii" | 1 | 1 | 1 | 2 | 3 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora taxon Pgchlamydo | 1 | 1 | 1 | 2 | 10 | 2 | 0 | 1 | 1 | 2 | 0 | 1 | 0 | 0 |
| Phytophthora pinifolia | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 1 | 1 | 0 | 1 | 0 | 0 |
| Phytophthora rosacearum | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |
| Phytophthora sp. "sulawesiensis" | 1 | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Clade 7 | ||||||||||||||
| Species Name | 60S-RPL10 | B-Tub | Eno | HSP90 | ITS | 28s-rRNA | Tig | EF-1a | cox1 | cox2 | nad1 | nad2 | rps10 | secY |
| Phytophthora alni subsp. multiformis | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Phytophthora alni subsp. uniformis | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Phytophthora alni subsp. alni | 1 | 1 | 1 | 1 | 3 | 2 | 1 | 1 | 2 | 3 | 0 | 2 | 1 | 1 |
| Phytophthora cajani | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora cambivora | 1 | 1 | 1 | 1 | 4 | 2 | 1 | 1 | 1 | 4 | 0 | 3 | 1 | 1 |
| Phytophthora cinnamomi | 2 | 2 | 1 | 1 | 8 | 2 | 1 | 1 | 2 | 13 | 0 | 4 | 4 | 7 |
| Phytophthora cinnamomi var. robiniae | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora cinnamomi var parvispora | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 1 | 2 | 0 | 2 | 3 | 2 |
| Phytophthora europaea | 2 | 2 | 1 | 2 | 3 | 2 | 1 | 1 | 2 | 1 | 0 | 2 | 1 | 2 |
| Phytophthora fragariae | 2 | 2 | 1 | 2 | 3 | 2 | 1 | 2 | 2 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora melonis | 2 | 1 | 1 | 2 | 2 | 2 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora sp. "niederhauserii" | 1 | 1 | 1 | 1 | 3 | 2 | 1 | 1 | 2 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora pistaciae | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora rubi | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora sinensis | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora sojae | 1 | 1 | 1 | 1 | 6 | 1 | 1 | 1 | 2 | 2 | 0 | 2 | 1 | 1 |
| Phytophthora uliginosa | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora vignae | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Clade 8 | ||||||||||||||
| Species Name | 60S-RPL10 | B-Tub | Eno | HSP90 | ITS | 28s-rRNA | Tig | EF-1a | cox1 | cox2 | nad1 | nad2 | rps10 | secY |
| Phytophthora austrocedrae | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora brassicae | 1 | 1 | 1 | 1 | 3 | 2 | 1 | 2 | 1 | 1 | 0 | 2 | 2 | 2 |
| Phytophthora cryptogea | 1 | 2 | 1 | 1 | 15 | 3 | 1 | 2 | 3 | 1 | 1 | 2 | 1 | 2 |
| Phytophthora drechsleri | 1 | 1 | 1 | 1 | 8 | 2 | 1 | 1 | 2 | 11 | 1 | 2 | 1 | 1 |
| Phytophthora erythroseptica | 1 | 1 | 1 | 2 | 3 | 2 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora foliorum | 1 | 1 | 1 | 1 | 3 | 1 | 1 | 2 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora hibernalis | 1 | 2 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora sp. "kelmania" | 1 | 1 | 1 | 1 | 3 | 1 | 1 | 1 | 2 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora lateralis | 1 | 1 | 0 | 1 | 2 | 1 | 0 | 1 | 0 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora medicaginis | 1 | 1 | 1 | 1 | 5 | 1 | 1 | 1 | 0 | 2 | 0 | 1 | 1 | 2 |
| Phytophthora porri | 1 | 1 | 1 | 1 | 4 | 1 | 1 | 1 | 1 | 2 | 0 | 1 | 1 | 1 |
| Phytophthora primulae | 1 | 1 | 1 | 2 | 2 | 2 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora ramorum | 2 | 1 | 2 | 2 | 3 | 2 | 1 | 2 | 1 | 8 | 0 | 1 | 1 | 2 |
| Phytophthora sansomeana | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 2 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora syringae | 1 | 1 | 1 | 1 | 4 | 1 | 1 | 1 | 2 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora trifolii | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Clade 9 | ||||||||||||||
| Species Name | 60S-RPL10 | B-Tub | Eno | HSP90 | ITS | 28s-rRNA | Tig | EF-1a | cox1 | cox2 | nad1 | nad2 | rps10 | secY |
| Phytophthora captiosa | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora sp. "cuyabensis" | 2 | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 2 | 0 | 2 | 1 | 1 |
| Phytophthora fallax | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 2 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora hydropathica | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Phytophthora insolita | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora irrigata | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Phytophthora sp. "lagoariana" | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora macrochlamydospora | 2 | 1 | 1 | 2 | 2 | 2 | 1 | 2 | 2 | 4 | 0 | 3 | 2 | 3 |
| Phytophthora sp. "napoensis" | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 1 | 0 | 1 | 0 | 0 |
| Phytophthora parsiana | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 1 | 0 | 2 | 0 | 0 |
| Phytophthora polonica | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora quininea | 1 | 1 | 0 | 1 | 2 | 2 | 1 | 1 | 1 | 2 | 0 | 1 | 1 | 1 |
| Phytophthora richardiae | 1 | 3 | 2 | 2 | 2 | 2 | 1 | 1 | 1 | 1 | 0 | 2 | 1 | 1 |
| Phytophthora thermophila | 1 | 1 | 1 | 1 | 2 | 1 | 0 | 1 | 3 | 1 | 1 | 1 | 1 | 1 |
| Clade 10 | ||||||||||||||
| Species Name | 60S-RPL10 | B-Tub | Eno | HSP90 | ITS | 28s-rRNA | Tig | EF-1a | cox1 | cox2 | nad1 | nad2 | rps10 | secY |
| Phytophthora boehmeriae | 1 | 1 | 1 | 1 | 4 | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| Phytophthora gallica | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| Phytophthora kernoviae | 1 | 1 | 2 | 1 | 2 | 2 | 1 | 2 | 2 | 2 | 0 | 1 | 1 | 1 |
