Fatal familial insomnia and a subtype of Creutzfeldt-Jakob disease, two clinicaly and pathologically distinct dies, are linked to the same mutation at codon 178 (Asp-178 --Asn) but segregate with different genotypes de-termined by this mutation and the methionivaline polymorphism at codon 129 of the prion protein gene. The abnormal isoforms of the prion protein in these two diseases were found to differ both in the relative abundance of glycosylated forms and in the size of the protease-restant fagments. The size difference was consistent with a different protease cleavage site, suggesting a different conformation of the protease-resistant prion protein present in the two diseases. These differences are likely to be responsible for the type and location of the lesions that characterize these two diseases. Therefore, the combination of the mutation at codon 178 and the polymorphism at codon 129 determines the disease phenotype by producing two altered conformations of the prion protein.Prion diseases, also called spongiform encephalopathies or transmissible amyloidoses, are a group of sporadic, iatrogenic, and familial diseases that affect humans and animals (1-3). The human familial forms include three major groups: (i) Creutzfeldt-Jakob disease (CJD), a subacute dementing illness usually associated with cerebellar signs, myoclonus, and spongiform degeneration (4, 6); (ii) GertsmannStraussler-Scheinker syndrome (GSS), a chronic condition characterized by ataxia, dementia, and the presence of amyloid plaques (4-6); and (iii) fatal familial insomnia (FFI), characterized by a loss of the ability to sleep, dysautonomia, selective atrophy of the thalamus, and usually no spongiform changes (7-11). Within these three groups there are subtypes defined by specific mutations in the prion protein (PrP) gene (PRNP). Mutations at PRNP codons 102, 105, 117, 198, and 217 are associated with GSS subtypes (12,13), while a mutation at codon 200 is linked to one CJD subtype, CJD2m (14). A mutation at codon 178 that results in the replacement of aspartic acid by asparagine (Asp-178 --Asn) is shared by FFI and another CJD subtype, CJD178 (4,(15)(16)(17). In spite of the common mutation, these two diseases are phenotypically distinct since in CJD178 severe sleep impairment has not been reported and there is widespread spongiosis rather than selective thalamic atrophy. Also, in contrast to FFI, CJD178 has been consistently transmitted to receptive animals (18).We recently showed that FFI and CJD178 segregate with distinct PRNP genotypes determined by a common methionine-valine polymorphism at codon 129 of the mutant allele that specifies methionine in FFI and valine in CJD178 (18).