Typing of hepatitis C virus by a new method based on restriction fragment length polymorphism

Intervirology

Volumn 42, Issue 1, 1999, Pages 1-8

  Buoro, Sabrina ^b   Pizzighella, Sergio ^b   Boschetto, Roberta ^b   Pellizzari, Lorenzo ^b   Cusan, Monica ^b   Bonaguro, Roberta ^b   Mengoli, Carlo ^b   Caudai, Cinzia ^b   Padula, Maria ^b   Valensin, Pier Egisto ^b   Palù, Giorgio ^a  

^a UNIVERSITY OF PADOVA   (Italy)

^b NONE

Author keywords

Hepatitis C virus genotypes; Hepatitis C virus RNA; INNOLiPA; Restriction fragment length polymorphism

Indexed keywords

ENDONUCLEASE;

ADULT; ARTICLE; FEMALE; GENOTYPE; HEPATITIS C; HEPATITIS C VIRUS; HUMAN; INTRAVENOUS DRUG ABUSE; MAJOR CLINICAL STUDY; MALE; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; VIRAL GENETICS; VIRUS DIAGNOSIS;

BASE SEQUENCE; FEMALE; GENOTYPE; HEPACIVIRUS; HEPATITIS C; HUMANS; MALE; MOLECULAR SEQUENCE DATA; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RNA, VIRAL;

EID: 0033034986     PISSN: 03005526     EISSN: None     Source Type: Journal    
DOI: 10.1159/000024953     Document Type: Article

References (27)

1. Mellor J, Walsh EA, Prescott LE, Jarvis LM, Davison F, Yap PL, Simmonds P, International HCV Collaborative Study Group: Survey of type 6 group variants of hepatitis C virus in South-East Asia by using a core-based genotyping assay. J Gen Virol 1996;34:417-423.
2. Choo QL, Richman KH, Han JH, Berger K, Lee C, Dong C, Gallegos C, Coit D, Medina-Selby M, Barr PJ, Weiner A, Bradley D, Kuo G, Hougton M: Genetic organization and diversity of the hepatitis C virus. Proc Natl Acad Sci USA 1991;88:2451-2455.
3. Kuo G, Choo Q, Alter H, Gintnick G, Redeker AG, Purcell RH, Miyamura M, Dienstag JL, Alter MJ, Stevens CE, Tegtemeier GE, Bonino F, Colombo M, Lee WS, Kuo C, Berger K, Shuster JR, Ooverby LR, Bradley DW, Hougton M: An assay for circulating antibodies to a major etiologic virus of human non-A, non-B hepatitis. Science 1989;244:362-364.
4. Alter MJ, Margolis SH, Krawczynski K, Judson FN, Maree A, Alexander WJ, Hu PY, Miller JK, Gerber MA, Sampliner RE, Meekes EL, Beach MJ: The natural history of community-acquired hepatitis C in United States. N Engl J Med 1992;327:1899-1905.
5. De Mitri MS, Poussin K, Baccarini P, Pontisso P, D'Errico A, Simon N, Grigioni W, Alberti A, Beaugrand M, Pisi E, Bréchot C, Paterlini P: HCV-associated liver cancer without cirrhosis. Lancet 1995;345:413-415.
6. Weiner AJ, Brauer JM, Rosenblatt J, Richerman KH, Tung J, Crawford K, Bonino F, Saracco G, Choo QL, Hougton M, Han JH: Variable and hypervariable domains are found in the regions of HCV corresponding to the flavivirus envelope and NS1 proteins and the pestivirus envelope glycoproteins. Virology 1991;180:842-848.
7. Dusheiko G, Schmilovitz-Weiss H, Brown D, McOmish F, Yap PL, Sherlock S, McIntyre N, Simmonds P: Hepatitis C virus genotypes: An investigation of type-specific differences in geographic origin and disease. Hepatology 1994;19:13-17.
8. Pontisso P, Ruvoletto MG, Nicoletti M, Timinetzky S, Gerotto M, Levero M, Artini M, Baldi M, Ballarini G, Barbara L, Bonetti P, Brillanti S, Casarin C, Chemello L, Costanzo A, De Mitri MS, Donad C, Felaco MF, Frezza M, Gata GB, Giostra F, Ivrese T, Lo Iacono O, Milella M, Monno L, Negro F, Piccinino F, Russo G, Vaccaro A, Baralle F, Alberti A: Distribution of three major hepatitis C virus genotypes in Italy: A multicentre study of 495 patients with chronic hepatitis. J Viral Hepat 1995;2:33-38.
9. Smith DB, Pontisso P: Heterogeneity of hepatitis C virus. Baillères Clin Gastroenterol 1996; 10:243-255.
10. Simmonds P, Alberti A, Alter HJ, Bonino F, Bradely DW, Bréchot C, Brouwer JT, Chan SW, Chayama K, Chen DS, Choo QL, Colombo M, Cuypers HTM, Date T, Dusheiko GM, Esteban JI, Fay O, Hadziyannis SJ, Han J, Hatzaki A, Holmes EC, Hotta H, Houghton M, Irvine B, Kohara M, Kolberg JA, Kuo G, Lau JYN, Leile PN, Maertens G, McHomish F, Miyamura T, Mizokami M, Nomoyo A, Prince AM, Reesenki HW, Rice C, Roggendorf M, Schaalm SW, Shikata T, Shimothohono K, Stuyver L, Trepo C, Weiner A, Yap PL, Urdea MS: A proposed system for nomenclature of hepatitis C viral genotypes. Hepatology 1994; 19:1321-1324.
11. Ohba J-I, Mizokami M, Ohno T, Suzuki K, Orito E, Ina Y, Lau JYN, Gojobori T: Classification of hepatitis C virus into major types and subtypes based on molecular evolutionary analysis. Virus Res 1995;36:201-214.
12. Simmonds P, McOmish F, Yap PL, Chan SW, Lin CK, Dusheiko G, Saeed A, Holmes EC: Sequence variability in the 5′ non-coding region of hepatitis C virus: Identification of new virus type and restriction sequence diversity. J Gen Virol 1993;74:661-668.
13. Smith DB, Mellor J, Davidson F, Kolberg J, Urdea M, Yap PL, Simmonds P, International HCV Collaborative Study Group: Variation of the hepatitis C virus 5′ non-coding region: Implications for secondary structure, virus detection and typing. J Gen Virol 1995;76:1749-1761.
14. Simmonds P, Smith DB, McOmish F, Yap PL, Kolberg J, Urdea MS, Holmes EC: Identification of genotypes of hepatitis C virus by sequence comparisons in the core, E1 and NS-5 regions. J Gen Virol 1994;75:1053-1061.
15. Pozzato G, Kaneko S, Moretti M, Croce LS, Franzin F, Unoroa M, Bereich L, Tribelli C, Crovatto M, Santini G, Kobayashi S: Different genotypes of hepatitis C virus are associated with different severity of chronic liver disease. J Med Virol 1994;43:291-296.
16. Yoshioka K, Kakumu S, Wakita T, Ishikaw T, Itoh Y, Takayanagi M, Higashi Y, Shibata M, Morishima T: Detection of hepatitis C virus by polymerase chain reaction and response to interferon. Therapy: Relationship to genotypes of hepatitis C virus. Hepatology 1992;16:293-299.
17. Stuyver L, Roussau R, Wyseur M: Typing of HCV isolates and characterisation of new subtypes using line probe assay. J Gen Virol 1993; 74:1093-1102.
18. Cohen J: A coefficient of agreement for nominal scales. Educ Psycol Meas 1960;20:37-46.
19. Fleiss JL: Statistical Methods for Rates and Proportions, ed 2. New York, Wiley, 1981.
20. Hawkins A, Davinson F, Simmonds P: Comparison of plasma virus load among individuals infected with hepatitis C virus (HCV) genotypes 1, 2, and 3 by Quantiplex HCV RNA assay version 1 and 2, Roche Monitor assay, and an in house limiting dilution method. J Clin Microbiol 1997;35:187-190.
21. Telenti A, Persing DH: Novel strategies for the detection of drug resistance in Mycobacterium tubercolosis. Res Microbiol 1996;147:73-79.
22. Davinson F, Simmonds P, Ferguson JC, Jarvis LM, Dow BC, Follet EAC, Seed CRG, Krusius T, Lin C, Medgyesi GA, Kiyokawa H, Olim G, Duraisamy G, Cuipers T, Saeed AA, Teo D, Conradie J, Kew MC, Lin M, Nuchaprayoon C, Yap PL: Survive of major genotypes and subtypes of hepatitis C virus using RFLP of sequences amplified from the 5′ non-coding region. J Gen Virol 1995;76:1197-1204.
23. Thiers V, Jaffredo F, Tuveri R, Chodan N, Bréchot C: Development of a simple restriction fragment length polymorphism (RFLP) based assay for HCV genotyping and serotyping. J Virol Methods 1997;65:9-17.
24. Pohjanpelto P, Lappalainene M, Widell A, Asikainen K, Paunio M: Hepatitis C genotypes in Finland determined by RFLP. Clin Diagn Virol 1996:7:7-16.
25. Lu M, Funsoh BI, Wiese M, Roggendorf M: Analysis of hepatitis C quasispecies populations by temperature gradient gel electrophoresis. J Gen Virol 1995;76:881-887.
26. Fox SA, Lareu RR, Swandson NR: Rapid genotyping of hepatitis C virus isolates by dideoxy fingerprinting. J Virol Methods 1995;53:1-9.
27. Ohno T, Mikozami M, Wu R-R, Saleh MG, Obha K-I, Orito E, Mukaide M, Williams R, Lau JYN: New hepatitis C virus (HCV) genotyping system that allows identification of HCV genotypes 1a, 1b, 2a, 2b, 3a, 3b, 4, 5a, 6a. J Clin Microbiol 1997;35:201-207.