Sequence analysis of viral isolates is a powerful epidemiologic and^ phylogenetic tool, wMch can shed light on the patterns of regional and ^pandemie spread of infections. We studied 80 worldwide isolates of HGV for sequence variation in subgenomic fragments of the 5' non coding (5NCR), JE2 andNS3 regions using 3 methods of phylogenetic inference and statistical ^comparison of pairwise evolutionary distances, according to a criticali framework elaborated for HCV analysis. In agreement with previous studies, iphylogenetic informativeness was restricted to 5NCR, whereas no significant ssegregation was observed for variants from other regions. Reproducible phylogenetic relationships were obtained supporting the existence of at least* 4 main HGV types. Three types (1-3) were as previously described (AS Muerhoff et al, J Virol 1997, DB Smith et al, J Gen Virol 1997) and Segregated according to geographical origins and major ethnic groups. South oAfrican isolates were phylogenetically distinct from other African isolates (type 1) and showed and intra/inter-type distribution of variation compatible oiwith the segregation into a new HGV type (type 4). Asian isolates (Japan, (Indonesia, Taiwan) were essentially type 3. European (Italy, Germany,: {Eastern European countries) and Midlle Eastern (Egypt, Saudi Arabia) Isolates were mainly type 2, a notable exception being type 1 isolates which hvere restricted to young intravenous drug users. This suggests a recent? fchange in the epidemiology of HGV infection as observed for HCV. Comparing a large database of 5NCR sequences, we identified signature motifs specific for the different HGV types and developed and validated a rapid PCR-based typing assay which makes use of 5 (1, 2a, 2b, 3 and 4) type-specific primers and gel sizing of PCR products. Using this assay, we typed over 150 Italian isolates from patients with cryptogenic and HCV-related liver disease of different severity. No differences in type distribution were observed according to the epidemiologic and pathologic variables analyzed with me exertion of a history of drug use in type 1 patients.
Phylogenetic analysis of Hepatitis G virus (HGV) 5'-non coding region and development of a rapid PCR-based typing Assay.
Lisa A;
1998
Abstract
Sequence analysis of viral isolates is a powerful epidemiologic and^ phylogenetic tool, wMch can shed light on the patterns of regional and ^pandemie spread of infections. We studied 80 worldwide isolates of HGV for sequence variation in subgenomic fragments of the 5' non coding (5NCR), JE2 andNS3 regions using 3 methods of phylogenetic inference and statistical ^comparison of pairwise evolutionary distances, according to a criticali framework elaborated for HCV analysis. In agreement with previous studies, iphylogenetic informativeness was restricted to 5NCR, whereas no significant ssegregation was observed for variants from other regions. Reproducible phylogenetic relationships were obtained supporting the existence of at least* 4 main HGV types. Three types (1-3) were as previously described (AS Muerhoff et al, J Virol 1997, DB Smith et al, J Gen Virol 1997) and Segregated according to geographical origins and major ethnic groups. South oAfrican isolates were phylogenetically distinct from other African isolates (type 1) and showed and intra/inter-type distribution of variation compatible oiwith the segregation into a new HGV type (type 4). Asian isolates (Japan, (Indonesia, Taiwan) were essentially type 3. European (Italy, Germany,: {Eastern European countries) and Midlle Eastern (Egypt, Saudi Arabia) Isolates were mainly type 2, a notable exception being type 1 isolates which hvere restricted to young intravenous drug users. This suggests a recent? fchange in the epidemiology of HGV infection as observed for HCV. Comparing a large database of 5NCR sequences, we identified signature motifs specific for the different HGV types and developed and validated a rapid PCR-based typing assay which makes use of 5 (1, 2a, 2b, 3 and 4) type-specific primers and gel sizing of PCR products. Using this assay, we typed over 150 Italian isolates from patients with cryptogenic and HCV-related liver disease of different severity. No differences in type distribution were observed according to the epidemiologic and pathologic variables analyzed with me exertion of a history of drug use in type 1 patients.I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.
