Differences between hepatitis C virus 5' untranslated region quasispecies in serum and liver

Journal of General Virology

Volumn 80, Issue 3, 1999, Pages 711-716

  Jang, Sook Jin ^a,b   Wang, Lian Fu ^a   Radkowski, Marek ^a   Rakela, Jorge ^a   Laskus, Tomasz ^a  

^a UNIVERSITY OF PITTSBURGH MEDICAL CENTER   (United States)

^b Chosun University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

VIRUS RNA;

ARTICLE; BLOOD ANALYSIS; CHRONIC HEPATITIS; CLINICAL ARTICLE; DISEASE COURSE; HEPATITIS C VIRUS; HUMAN; LIVER; PRIORITY JOURNAL; RNA SEQUENCE; SINGLE STRAND CONFORMATION POLYMORPHISM; VIRUS MUTATION;

EID: 0033031389     PISSN: 00221317     EISSN: None     Source Type: Journal    
DOI: 10.1099/0022-1317-80-3-711     Document Type: Article

References (39)

1. Agol, V. I. (1991). The 5′-untranslated region of picomaviral genomes. Advances in Virus Research 40, 103-180.
2. Alter, M. J., Margolis, H. S., Krawczynski, K., Judson, F. N., Mares, A., Alexander, W. J., Hu, P. Y., Miller, J. K., Gerber, M. A., Sampliner, R. E., Meeks, E. L. & Beach, M. J. (1992). The natural history of community-acquired hepatitis C in the United States. The Sentinel Counties Chronic non-A, non-B Hepatitis Study Team. New England Journal of Medicine 327, 1899-1905.
3. Brown, E. A., Zhang, H., Ping, L.-M. & Lemon, S. M. (1992). Secondary structure of the 5′ nontranslated regions of hepatitis C virus and pestivirus genomic RNAs. Nucleic Acids Research 20, 5041-5045.
4. Cabot, B., Esteban, J. I., Martell, M., Genesca, J., Vargas, V., Esteban, R., Guardia, J. & Gomez, J. (1997). Structure of replicating hepatitis C virus (HCV) quasispecies in the liver may not be reflected by analysis of circulating HCV virions. Journal of Virology 71, 1732-1734.
5. Choo, Q. L., Kuo, G., Weiner, A. J., Overby, L. R., Bradley, D. W. & Houghton, M. (1989). Isolation of a cDNA clone derived from a blood-borne non-A, non-B viral hepatitis genome. Science 244, 359-362.
6. Choo, Q.-L., Richman, K., Han, J. H., Berger, K., Lee, C., Dong, C., Gallegos, C., Coit, D., Medina-Selby, A., Barr, P. J., Weiner, A., Bradley, D. W., Kuo, G. & Houghton, M. (1991). Genetic organization and diversity of the hepatitis C virus. Proceedings of the National Academy of Sciences, USA 88, 2451-2455.
7. Domingo, E., Martinez-Salas, E., Sobrino, F., de la Torre, J. C., Portela, A., Ortin, J., Lopez-Galindez, C., Perez-Brena, P., Villanueva, N., Najera, R., VandePol, S., Steinhauer, D., DePolo, N. & Holland, J. (1985). The quasispecies (extremely heterogeneous) nature of viral RNA genome populations: biological relevance - a review. Gene 40, 1-8.
8. Enomoto, N., Kurosaki, M., Tanaka, Y., Marumo, F. & Sato, C. (1994). Fluctuation of hepatitis C virus quasispecies in persistent infection and Interferon treatment revealed by single-strand conformation polymorphism analysis. Journal of General Virology 75, 1361-1369.
9. Hijikata, M., Kato, N., Ootsuyama, Y., Nakagawa, M., Ohkoshi, S. & Shimotohno, K. (1991). Hypervariable regions in the putative glycoprotein of hepatitis C virus. Biochemical and Biophysical Research Communications 175, 220-228.
10. Honda, M., Kaneko, S., Sakai, A., Unoura, M., Murakami, S. & Kobayashi, K. (1994). Degree of diversity of hepatitis C virus quasispecies and progression of liver disease. Hepatology 20, 1144-1151.
11. Honda, M., Rijnbrand, R. C. A., Amphlett, A., Clarke, B., Rowlands, D. & Lemon, S. M. (1996). Structural requirements for initiation of translation by internal ribosome entry within genome-length hepatitis C virus RNA. Virology 222, 31-42.
12. Jang, S. K. & Wimmer, E. (1990). Cap-independent translation of encephalomyocarditis virus RNA: structural elements of the internal ribosomal entry site and involvement of a cellular 57-kD RNA-binding protein. Genes & Development 4, 1560-1572.
13. Kiyosawa, K., Sodeyama, T., Tanaka, E., Gibo, Y., Yoshizawa, K., Nakano, Y., Furuta, S., Akahane, Y., Nishioka, K., Purcell, R. H. & Alter, H. J. (1990). Interrelationship of blood transfusion, non-A, non-B hepatitis and hepatocellular carcinoma: analysis by detection of antibody to hepatitis C virus. Hepatology 12, 671-675.
14. Koizumi, K., Enomoto, E., Kurosaki, M., Murakami, T., Izumi, N., Marumo, F. & Sato, C. (1995). Diversity of quasispecies in various disease stages of chronic hepatitis C virus infection and its significance in Interferon treatment. Hepatology 22, 30-35.
15. Kuo, G., Choo, Q. L., Alter, H. J., Gitnick, G. L., Redeker, A. G., Purcell, R. H., Miyamura, T., Dienstag, J. L., Alter, M. J., Stevens, C. I., Tegtmeier, G. E., Bonino, F., Colombo, M., Lee, W. S., Kuo, C., Berger, K., Schuster, J. R., Overby, L. R., Bradley, D. W. & Houghton, M. (1989). An assay for circulating antibodies to a major etiologic virus of human non-A, non-B hepatitis. Science 244, 362-364.
16. Laskus, T., Wang, L. F., Rakela, J., Vargas, H., Pinna, A. D., Tsamandas, A. C., Demetris, A. J. & Fung, J. (1996). Dynamic behavior of hepatitis C virus in chronically infected patients receiving liver graft from infected donors. Virology 220, 171-176.
17. Laskus, T., Radkowski, M., Wang, L.-F., Cianciara, J., Vargas, H. & Rakela, J. (1997 a). Hepatitis C virus negative strand RNA is not detected in peripheral blood mononuclear cells and viral sequences are identical to those in serum: a case against extrahepatic replication. Journal of General Virology 78, 2747-2750.
18. Laskus, T., Radkowski, M., Wang, L. F., Vargas, H. & Rakela, J. (1997 b). Lack of evidence for hepatitis G virus replication in livers of patients coinfected with hepatitis C and G viruses. Journal of Virology 71, 7804-7806.
19. Laskus, T., Radkowski, M., Wang, L. F., Jang, S. J., Vargas, H. & Rakela, J. (1998). Hepatitis C virus quasispecies in patients infected with HIV-1: correlation with extrahepatic viral replication. Virology 248, 164-171.
20. Maggi, F., Fornai, C., Vatteroni, M. L., Giorgi, M., Morrica, A., Pistello, M., Cammarota, G., Marchi, S., Ciccorossi, P., Bionda, A. & Bendinelli, M. (1997). Differences in hepatitis C virus quasispecies composition between liver, peripheral blood mononuclear cells and plasma. Journal of General Virology 78, 1521-1525.
21. Martell, M., Esteban, J. I., Quer, J., Genesca, J., Weiner, A., Esteban, R., Guardia, J. & Gomez, J. (1992). Hepatitis C virus (HCV) circulates as a population of different but closely related genomes: quasispecies nature of HCV genome distribution. Journal of Virology 66, 3225-3229.
22. Navas, S., Martin, J., Quiroga, J. A., Castillo, I. & Carreno, V. (1998). Genetic diversity and tissue compartmentalization of the hepatitis C virus genome in blood mononuclear cells, liver, and serum from chronic hepatitis C patients. Journal of Virology 72, 1640-1646.
23. Okamoto, H., Sugiyama, Y., Okada, S., Kurai, K., Akahane, Y., Sugai, Y., Tanaka, T., Sato, K., Tsuda, F., Miyakawa, Y. & Mayumi, M. (1992). Typing hepatitis C virus by polymerase chain reaction with type-specific primers: application to clinical surveys and tracing infectious sources. Journal of General Virology 73, 673-679.
24. Pelletier, J. & Sonenberg, N. (1988). Internal initiation of translation of eukaryotic mRNA directed by a sequence from poliovirus RNA. Nature 334, 320-325.
25. Sakamoto, N., Enomoto, N., Kurosaki, M., Asahina, Y., Maekawa, S., Koizumi, K., Sakuma, I., Murakami, T., Marumo, F. & Sato, C. H. (1995). Comparison of the hypervariable region of hepatitis C virus genomes in plasma and liver. Journal of Medical Virology 46, 7-11.
26. Shimizu, Y. K., Hijikata, M., Iwamoto, A., Alter, H. J., Purcell, R. H. & Yoshikura, H. (1994). Neutralizing antibodies against hepatitis C virus and the emergence of neutralization escape mutant viruses. Journal of Virology 68, 1494-1500.
27. Shimizu, Y. K., Igarashi, H., Kanematu, T., Fujiwara, K., Wong, D. C., Purcell, R. H. & Yoshikura, H. (1997). Sequence analysis of the hepatitis C virus genome recovered from serum, liver, and peripheral blood mononuclear cells of infected chimpanzees. Journal of Virology 71, 5769-5773.
28. Simmonds, P., McOmish, F., Yap, P. L., Chan, S.-W., Lin, C. K., Dusheiko, G., Saeed, A. A. & Holmes, E. C. (1993). Sequence variability in the 5′ non-coding region of hepatitis C virus: identification of a new virus type and restrictions on sequence diversity. Journal of General Virology 74, 661-668.
29. Simonetti, R. G., Camma, C., Fiorello, F., Cottone, M., Rapicetta, M., Marino, L., Fiorentino, G., Craxi, A., Ciccaglione, A., Giuseppetti, R., Stroffolini, T. & Pagliaro, L. (1992). Hepatitis C virus infection as a risk factor for hepatocellular carcinoma in patients with cirrhosis. A case-control study. Annals of Internal Medicine 116, 97-102.
30. Smith, D. B., Mellor, J., Jarvis, L. M., Davidson, F., Kolberg, J., Urdea, M., Yap, P.-L., Simmonds, P. & The International HCV Collaborative Study Group (1995). Variation of the hepatitis C virus 5′ non-coding region: implications for secondary structure, virus detection and typing. Journal of General Virology 76, 1749-1761.
31. Smith, D. B., McAllister, J., Casino, C. & Simmonds, P. (1997). Virus 'quasispecies': making a mountain out of a molehill? Journal of General Virology 78, 1511-1519.
32. Steinhauer, D. A. & Holland, J. J. (1987). Rapid evolution of RNA viruses. Annual Review of Microbiology 41, 409-433.
33. Taniguchi, S., Okamoto, H., Sakamoto, M., Kojima, M., Tsuda, F., Tanaka, T., Munekata, E., Muchmore, E. E., Peterson, D. A. & Mishiro, S. A. (1993). A structurally flexible and antigenically variable N-terminal domain of the hepatitis C virus E2/NS1 protein: implication for an escape from antibody. Virology 195, 297-301.
34. Tsukiyama-Kohara, K., Iizuka, N., Kohara, M. & Nomoto, A. (1992). Internal ribosome entry site within hepatitis C virus RNA. Journal of Virology 66, 1476-1483.
35. Walter, A. E., Turner, D. H., Kim, J., Lyttle, M. H., Müller, P., Mathews, D. H. & Zuker, M. (1994). Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding. Proceedings of the National Academy of Sciences, USA 91, 9218-9222.
36. Wang, L.-F., Rakela, J. & Laskus, T. (1997). Head-to-tail primer tandem repeats generated in hemi-nested PCR. Molecular & Cellular Probes 11, 385-387.
37. Weiner, A. J., Brauer, M. J., Rosenblatt, J., Richman, K. H., Tung, J., Crawford, K., Bonino, F., Saracco, G., Choo, Q. L., Houghton, M. & Han, J. H. (1991). 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 180, 842-848.
38. Zeuzem, S., Schmidt, J. M., Lee, J.-H., Ruster, B. & Roth, W. K. (1996). Effect of Interferon alpha on the dynamics of hepatitis C virus turnover in vivo. Hepatology 23, 366-371.
39. Zuker, M. (1989). On finding all suboptimal foldings of an RNA molecule. Science 244, 48-52.