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The plasmodiophores (also known as plasmophorids or plasmodiophorids) are a group of obligate endoparasitic protists belonging to the subphylum Endomyxa in Cercozoa. Taxonomically, they are united under a single family Plasmodiophoridae, order Plasmodiophorida, sister to the .
In 1969 Whittaker, in his five-kingdom system, elevated the group to a separate phylum “Plasmodiophoromycota”, acknowledging them as protists instead of fungi.
In 1993 Cavalier-Smith included the plasmodiophores and their sister group Phagomyxida in their current class, Phytomyxea, as part of a polyphyletic phylum called Opalozoa, which at the time contained a diverse assemblage of unrelated zooflagellates, Opalinidae and Proteomyxia. Eventually this phylum was discarded, and the name Opalozoa was modified to label a group inside the phylum Bigyra containing the Opalinata, bicosoecids and related organisms.
Finally, after phylogeny analyses, in 2002 Cavalier-Smith placed all Phytomyxea, including plasmodiophores, in the subphylum Endomyxa, inside the phylum Cercozoa.
These genera were once considered plasmodiophores until they were excluded:
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