The ciliated protozoan communities in the hypolimnion of a highly prod
uctive pond were investigated over two years. Three physiological grou
ps could be distinguished: (a) microaerobic ciliates which tracked the
oxic-anoxic boundary within the stratified water column; (b) anaerobi
c ciliates with endosymbiotic methanogens; and (c) anaerobes without e
ndosymbiotic methanogens. Both groups of anaerobes were confined to th
e anoxic zone of the hypolimnion. Community biomass was dominated by m
icroaerobic ciliates which had on average 20 times larger cells than a
naerobic ciliates. Abundance and biomass of microaerobic ciliates decr
eased over the summer, while anaerobic ciliates increased. This reflec
ted a spatial shift in the availability of inorganic nutrients and, as
a result, of ciliate food from the epi- and metalimnion to the hypoli
mnion. The low biomass production of anaerobic ciliates was consistent
with the low theoretical growth efficiency of anaerobic metabolism. C
iliate species displayed characteristic spatial and seasonal distribut
ion patterns within the water column which were similar in both years
investigated. Spatial and temporal distribution was mainly governed by
two factors: (1) the distribution of dissolved oxygen; and (2) the av
ailability of food. Distribution patterns were not related to chemical
gradients other than the oxygen gradient, but they were correlated wi
th the distribution of major food sources.