Most of the small ciliate protozoa, including Dasytricha ruminantium a
nd Entodinium spp. living in the rumen of sheep, were found to have in
tracellular bacteria. These bacteria were not present in digestive vac
uoles. They showed characteristic coenzyme F420 autofluorescence and t
hey were detected with a rhodamine-labelled Archaea-specific oligonucl
eotide probe. The measured volume percent of autofluorescing bacteria
(1%) was close to the total volume of intracellular bacteria estimated
from TEM stereology. Thus it is likely that all of the bacteria livin
g in the cytoplasm of these ciliates were endosymbiotic methanogens, u
sing H-2 evolved by the host ciliate to form methane. Intracellular me
thanogens appear to be much more numerous than those attached to the e
xternal cell surface of ciliates.