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Cordyceps subgen. Epichloe was at one time a subgenus, but is now regarded as a separate genus, Epichloë.[5]
Cordyceps subgen. Ophiocordyceps was at one time a subgenus defined by morphology. Nuclear DNA sampling done in 2007 shows that members, including "C. sinensis" and "C. unilateralis", as well as some others not placed in the subgenus, were distantly related to most of the remainder of species then placed in Cordyceps (e.g. the type species C. militaris). As a result, it became its own genus, absorbing new members.[8][9]
The 2007 study also peeled off Metacordyceps (anamorph Metarhizium, Pochonia) and Elaphocordyceps. A number of species remain unclearly assigned and provisionally retained in Cordyceps sensu lato.[8]