Hepatitis E virus (HEV) replication is not well understood, mainly because the virus does not infect cultured cells efficiently. However, Huh-7 cells transfected with full-length genomes produce open reading frame 2 protein, indicative of genome replication (6). To investigate the role of 3-terminal sequences in RNA replication, we constructed chimeric full-length genomes with divergent 3-terminal sequences of genotypes 2 and 3 replacing that of genotype 1 and transfected them into Huh-7 cells. The production of viral proteins by these full-length chimeras was indistinguishable from that of the wild type, suggesting that replication was not impaired. In order to better quantify HEV replication in cell culture, we constructed an HEV replicon with a reporter (luciferase). Luciferase production was cap dependent and RNA-dependent RNA polymerase dependent and increased following transfection of Huh-7 cells. Replicons harboring the 3-terminal intergenotypic chimera sequences were also assayed for luciferase production. In spite of the large sequence differences among the 3 termini of the viruses, replication of the chimeric replicons was surprisingly similar to that of the parental replicon. However, a single unique nucleotide change within a predicted stem structure at the 3 terminus substantially reduced the efficiency of replication: RNA replication was partially restored by a covariant mutation. Similar patterns of replication were obtained when full-length genomes were inoculated into rhesus macaques, suggesting that the in vitro system could be used to predict the effect of 3-terminal mutations in vivo. Incorporation of the 3-terminal sequences of the swine strain of HEV into the genotype 1 human strain did not enable the human strain to infect swine.Hepatitis E virus (HEV) is a major cause of enterically transmitted hepatitis, especially in Asia and Africa. Serological prevalence data suggest that HEV might be endemic in industrialized countries as well, although it rarely causes disease in these countries (reviewed in references 7, 19, and 29). Antibodies to HEV (anti-HEV) have also been detected in a wide variety of animals, and HEV has been found in swine (2, 10, 12, 25, 33), deer (35), and chickens (11, 14); these findings raise the possibility that HEV may be a zoonosis (22). HEV strains infecting mammals differ at the nucleotide level by as much as 27%, whereas the avian strain differs from the mammalian strains by up to 50%. The mammalian HEV strains have been classified into four genotypes based on sequence variations (31), but they appear to comprise a single serotype (29,45).HEV differs enough from other viruses that it was recently classified as the sole member of the new genus Hepevirus (5). HEV is nonenveloped and contains a single-stranded RNA genome of positive sense that is capped and polyadenylated. The 7.2-kb genome contains three partially overlapping open reading frames (ORFs). ORF1 encodes a nonstructural polyprotein which provides guanylyl-methyltransferase and RNA-dependent RNA polymera...