The distribution and occurrence of rare ascomycete fungi within freshwater samples in Korea was investigated. Three rare fungal strains, CNUFC-YR537-1, CNUFC-CNUP1-1, and CNUFC-NDR3-1, were isolated using serial dilution method. On the basis of their morphological characteristics and phylogenetic analysis of their internal transcribed spacer regions and 28S rDNA sequences, the three isolates were identified as
Acrostalagmus luteoalbus
,
Bartalinia robillardoides
, and
Collariella carteri,
respectively. To our knowledge, these are the first records of rare genera
Acrostalagmus
,
Bartalinia
, and
Collariella
from Korea, and the first reports of
A. luteoalbus
,
B. robillardoides
, and
C. carteri
from freshwater samples.