The etiological agent of epitheliocystis in lake trout Salvelinus namaycush at 2 hatcheries (A and B) in the United States was investigated utilizing light, immunofluorescence, and transmission electron microscopy. Branchial inclusions observed in fish at Hatchery A were dispersed at the base of, and randomly along, the secondary lamellae. They included epithelial hyperplasia and hypertrophy, and diffuse lamellar edema and fusion. In fish at Hatchery B the branchial inclusions were located predominantly on the primary lamellae. Pathological alterations were less severe, and were characterized primarily by focal lesions of epithelial hypertrophy. The epitheliocystis particles within the branchial inclusions of fish at both hatcheries exhibited typical chlamydia morphology, size, and developmental stages. A form uncharacteristic of chlamydia was also observed. In addition, a nonchlamydia-like agent was found in branchial tissue of fish at Hatchery B. Immunofluorescent staining of infected branchial tissue with a monoclonal antibody to an antigen specific for the chlamydia genus indicated that the agents lack the lipopolysaccharide common to all known Chlamydia species. Attempts to isolate the agents in McCoy and epithelioma papillosum cyprini (EPC) cell culture systems optirnized for chlamydial growth were unsuccessful, possibly due to the poor condition of tissue samples. Massive mortalities of lake trout observed at the 2 hatcheries were associated with the epitheliocystis infections. Investigations in other laboratories failed to reveal the presence of other agents (viruses, bacteria, fungi, ectoparasites) or suboptimal conditions in water quality that might account for the mortalities. The branchial and systemic lesions observed in fish during epizootics are consonant with findings for several epitheliocystis agents and for chlamydia-like agents in other fish species.