Until recently the sedge parasite Kriegeria eriophori has never been satisf
actorily classified above the genus level. Its classification has been prob
lematic in that a number of characters at the gross micromorphological and
ultrastructural levels appeared to be autapomorphic. The use of nucleotide
sequence data has proven to be a powerful means of addressing difficult sys
tematic problems in which standard morphological approaches have failed to
preside sufficient information. During this study, some of these ultrastruc
tural characters were discovered to be synapomorphies for a group containin
g K. eriophori and Microbotryum violaceum, a urediniomycete smut species. R
ibosomal RNA gene sequences and nucleus-associated ultrastructural characte
rs were analysed separately and combined. These characters serve to define
the new subclass Microbotryomycetidae. Inclusion of the sequences in the an
alysis provided an independent data set by which the ultrastructural charac
ter states were polarized. Gross micromorphological characters proved to be
homoplasious, and of less utility in determining phylogenetic groups than
were ultrastructural and nucleotide characters. Cladistic analysis of ultra
structural and biochemical characters provides a powerful means of identify
ing monophyletic groups, the prerequisite for creating a phylogenetic class
ification. A phylogenetic diagnosis is provided for the Microbotryomycetida
e, which deviates from the pattern used in typical diagnoses.