Fungal endophytes are ubiquitous fungi that inhabit healthy plant tissues w
ithout causing disease. Endophytes have been found in every plant species e
xamined to date and may be important, but often overlooked, components of f
ungal biodiversity. In two sites in a lowland, moist tropical forest of cen
tral Panama, we quantified endophyte colonization patterns, richness, host
preference, and spatial variation in healthy leaves of two co-occurring, un
derstory tree species [Heisteria concinna (Olacaceae) and Ouratea lucens (O
chnaceae)]. From 83 leaves, all of which were colonized by endophytes, we i
solated 418 endophyte morphospecies (estimated 347 genetically distinct tax
a), most of which were represented by only a single isolate (59%). Among mo
rphospecies encountered in more than one leaf (nonsingletons), we found evi
dence of host preference and spatial heterogeneity using both morphospecies
frequencies and presence/absence records. Based on these data, we postulat
e that tropical endophytes themselves may be hyperdiverse and suggest that
extrapolative estimates that exclude them will markedly underestimate funga
l species diversity.