Dynamics of defective hepatitis c virus clones in reinfected liver grafts in liver transplant recipients: Ultradeep sequencing analysis

Journal of Clinical Microbiology

Volumn 51, Issue 11, 2013, Pages 3645-3652

  Ohtsuru, Shigeru ^a   Ueda, Yoshihide ^a   Marusawa, Hiroyuki ^a   Inuzuka, Tadashi ^a   Nishijima, Norihiro ^a   Nasu, Akihiro ^a   Shimizu, Kazuharu ^a   Koike, Kaoru ^a   Uemoto, Shinji ^b   Chiba, Tsutomu ^a  

^a Department of Gastroenterology and Hepatology ^*  (Japan)

^b KYOTO UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

METHYLPREDNISOLONE; MYCOPHENOLIC ACID 2 MORPHOLINOETHYL ESTER; PROSTAGLANDIN E1; RITUXIMAB; STEROID; TACROLIMUS;

ADULT; AGED; ARTICLE; CELL CLONE; CLINICAL ARTICLE; CONTROLLED STUDY; DEFECTIVE VIRUS; END STAGE LIVER DISEASE; FEMALE; GENE STRUCTURE; GENETIC HETEROGENEITY; GENETIC PROCEDURES; GENOTYPE; GRAFT INFECTION; GRAFT RECIPIENT; HEPATITIS C; HEPATITIS C VIRUS; HUMAN; HUMAN TISSUE; IMMUNOSUPPRESSIVE TREATMENT; LIVER GRAFT; LIVER GRAFT REJECTION; LIVER TRANSPLANTATION; MALE; NONHUMAN; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; REINFECTION; SEQUENCE ANALYSIS; ULTRADEEP SEQUENCING; VIRAL GENETICS; VIROGENESIS; VIRUS GENOME; VIRUS LOAD; VIRUS REPLICATION;

AGED; BLOOD; FEMALE; GENETIC VARIATION; GENOTYPE; HEPACIVIRUS; HEPATITIS C, CHRONIC; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; HUMANS; LIVER; LIVER TRANSPLANTATION; MALE; MIDDLE AGED; RNA, VIRAL; TRANSPLANTATION;

EID: 84886561466     PISSN: 00951137     EISSN: 1098660X     Source Type: Journal    
DOI: 10.1128/JCM.00676-13     Document Type: Article

References (25)

1. Shimotohno K.1995.Hepatitis C virus as a causative agent of hepatocellular carcinoma.Intervirology 38:162-169.
2. Mardis ER.2009.New strategies and emerging technologies for massively parallel sequencing: applications in medical research.Genome Med.1:40.doi:10.1186/gm40.
3. Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, Bemben LA, Berka J, Braverman MS, Chen YJ, Chen Z, Dewell SB, Du L, Fierro JM, Gomes XV, Godwin BC, He W, Helgesen S, Ho CH, Irzyk GP, Jando SC, Alenquer ML, Jarvie TP, Jirage KB, Kim JB, Knight JR, Lanza JR, Leamon JH, Lefkowitz SM, Lei M, Li J, Lohman KL, Lu H, Makhijani VB, McDade KE, McKenna MP, Myers EW, Nickerson E, Nobile JR, Plant R, Puc BP, Ronan MT, Roth GT, Sarkis GJ, Simons JF, Simpson JW, Srinivasan M, Tartaro KR, Tomasz A, Vogt KA, Volkmer GA, Wang SH, Wang Y, Weiner MP, Yu P, Begley RF, Rothberg JM.2005.Genome sequencing in microfabricated high-density picolitre reactors.Nature 437:376-380.
4. Ueda Y, Marusawa H, Kaido T, Ogura Y, Ogawa K, Yoshizawa A, Hata K, Fujimoto Y, Nishijima N, Chiba T, Uemoto S.2012.Efficacy and safety of prophylaxis with entecavir and hepatitis B immunoglobulin in preventing hepatitis B recurrence after living-donor liver transplantation.Hepatol Res.43:67-71.
5. Ohno O, Mizokami M, Wu RR, Saleh MG, Ohba K, Orito E, Mukaide M, Williams R, Lau JY.1997.New hepatitis C virus (HCV) genotyping system that allows for identification of HCV genotypes 1a, 1b, 2a, 2b, 3a, 3b, 4, 5a, and 6a.J. Clin. Microbiol.35:201-207.
6. Nasu A, Marusawa H, Ueda Y, Nishijima N, Takahashi K, Osaki Y, Yamashita Y, Inokuma T, Tamada T, Fujiwara T, Sato F, Shimizu K, Chiba T.2011.Genetic heterogeneity of hepatitis C virus in association with antiviral therapy determined by ultra-deep sequencing.PLoS One 6:e24907.doi:10.1371/journal.pone. 0024907.
7. Nishijima N, Marusawa H, Ueda Y, Takahashi K, Nasu A, Osaki Y, Kou T, Yazumi S, Fujiwara T, Tsuchiya S, Shimizu K, Uemoto S, Chiba T.2012.Dynamics of hepatitis B virus quasispecies in association with nucleos( t)ide analogue treatment determined by ultra-deep sequencing.PLoS One 7:e35052.doi:10.1371/ journal.pone.0035052.
8. Iwai A, Marusawa H, Takada Y, Egawa H, Ikeda K, Nabeshima M, Uemoto S, Chiba T.2006.Identification of novel defective HCV clones in liver transplant recipients with recurrent HCV infection.J.Viral Hepat.13:523-531.
9. Fishman SL, Branch AD.2009.The quasispecies nature and biological implications of the hepatitis C virus.Infect.Genet.Evol.9:1158-1167.
10. Wolinsky SM, Korber BT, Neumann AU, Daniels M, Kunstman KJ, Whetsell AJ, Furtado MR, Cao Y, Ho DD, Safrit JT.1996.Adaptive evolution of human immunodeficiency virus-type 1 during the natural course of infection.Science 272:537-542.
11. Cabot B, Martell M, Esteban JI, Sauleda S, Otero T, Esteban R, Guàrdia J, Gómez J.2000.Nucleotide and amino acid complexity of hepatitis C virus quasispecies in serum and liver.J. Virol.74:805-811.
12. Jang SJ, Wang LF, Radkowski M, Rakela J, Laskus T.1999.Differences between hepatitisCvirus 5= untranslated region quasispecies in serum and liver.J.Gen.Virol.80(Pt 3):711-716.
13. Sakai A, Kaneko S, Honda M, Matsushita E, Kobayashi K.1999.Quasispecies of hepatitis C virus in serum and in three different parts of the liver of patients with chronic hepatitis.Hepatology 30:556-561.
14. De Mitri MS, Mele L, Chen CH, Piccinini A, Chianese R, D'Errico A, Alberti A, Pisi E.1998.Comparison of serum and liver hepatitis C virus quasispecies in HCV-related hepatocellular carcinoma.J.Hepatol.29: 887-892.
15. Sakamoto N, Enomoto N, Kurosaki M, Asahina Y, Maekawa S, Koizumi K, Sakuma I, Murakami T, Marumo F, Sato C.1995.Comparison of the hypervariable region of hepatitis C virus genomes in plasma and liver.J.Med.Virol.46:7-11.
16. Gretch DR, Polyak SJ, Wilson JJ, Carithers RL, Jr, Perkins JD, Corey L.1996.Tracking hepatitis C virus quasispecies major and minor variants in symptomatic and asymptomatic liver transplant recipients.J. Virol.70: 7622-7631.
17. Hughes MG, Jr, Rudy CK, Chong TW, Smith RL, Evans HL, Iezzoni JC, Sawyer RG, Pruett TL.2004.E2 quasispecies specificity of hepatitis C virus association with allografts immediately after liver transplantation.Liver Transpl.10:208-216.
18. Gao L, Aizaki H, He JW, Lai MM.2004.Interactions between viral nonstructural proteins and host protein hVAP-33 mediate the formation of hepatitis C virus RNA replication complex on lipid raft.J. Virol.78: 3480-3488.
19. Moradpour D, Brass V, Bieck E, Friebe P, Gosert R, Blum HE, Bartenschlager R, Penin F, Lohmann V.2004.Membrane association of the RNA-dependent RNA polymerase is essential for hepatitis C virus RNA replication.J. Virol.78:13278-13284.
20. Shimakami T, Hijikata M, Luo H, Ma YY, Kaneko S, Shimotohno K, Murakami S.2004.Effect of interaction between hepatitis C virus NS5A and NS5B on hepatitis C virus RNA replication with the hepatitis C virus replicon.J. Virol.78:2738-2748.
21. Bernardin F, Stramer SL, Rehermann B, Page-Shafer K, Cooper S, Bangsberg DR, Hahn J, Tobler L, Busch M, Delwart E.2007.High levels of subgenomic HCV plasma RNA in immunosilent infections.Virology 365:446-456.
22. Noppornpanth S, Smits SL, Lien TX, Poovorawan Y, Osterhaus ADME, Haagmans BL.2007.Characterization of hepatitis C virus deletion mutants circulating in chronically infected patients.J. Virol.81:12496-12503.
23. Pacini L, Graziani R, Bartholomew L, De Francesco R, Paonessa G.2009.Naturally occurring hepatitis C virus subgenomic deletion mutants replicate efficiently in Huh-7 cells and are trans-packaged in vitro to generate infectious defective particles.J. Virol.83:9079-9093.
24. Sugiyama K, Suzuki K, Nakazawa T, Funami K, Hishiki T, Ogawa K, Saito S, Shimotohno KW, Suzuki T, Shimizu Y, Tobita R, Hijikata M, Takaku H, Shimotohno K.2009.Genetic analysis of hepatitis C virus with defective genome and its infectivity in vitro.J. Virol.83: 6922-6928.
25. Yagi S, Mori K, Tanaka E, Matsumoto A, Sunaga F, Kiyosawa K, Yamaguchi K.2005.Identification of novel HCV subgenome replicating persistently in chronic active hepatitis C patients.J.Med.Virol.77:399-413.