A functional genomic screen reveals novel host genes that mediate interferon-alpha's effects against hepatitis C virus

Journal of Hepatology

Volumn 56, Issue 2, 2012, Pages 326-333

  Zhao, Hong ^a,b   Lin, Wenyu ^b   Kumthip, Kattareeya ^b   Cheng, Du ^b   Fusco, Dahlene N ^b   Hofmann, Oliver ^c   Jilg, Nikolaus ^b   Tai, Andrew W ^d   Goto, Kaku ^b   Zhang, Leiliang ^b   Hide, Winston ^c   Jang, Jae Young ^b   Peng, Lee F ^b   Chung, Raymond T ^b  

^a PEKING UNIVERSITY FIRST HOSPITAL   (China)

^b MASSACHUSETTS GENERAL HOSPITAL   (United States)

^c HARVARD SCHOOL OF PUBLIC HEALTH   (United States)

^d UNIVERSITY OF MICHIGAN HEALTH SYSTEM   (United States)

Author keywords

HCV; IFN ; SART1; siRNA; U4 U6.U5tri snRNP

Indexed keywords

ALPHA INTERFERON RECEPTOR; INTERFERON REGULATORY FACTOR; MESSENGER RNA; PEGINTERFERON ALPHA2B; SMALL INTERFERING RNA; SMALL NUCLEAR RIBONUCLEOPROTEIN; SQUAMOUS CELL CARCINOMA ANTIGEN; SQUAMOUS CELL CARCINOMA ANTIGEN RECOGNIZED BY T CELLS; UNCLASSIFIED DRUG;

ANTIVIRAL ACTIVITY; ARTICLE; CONTROLLED STUDY; DRUG EFFICACY; GENE IDENTIFICATION; GENE LIBRARY; GENE SILENCING; GENETIC ANALYSIS; GENETIC ASSOCIATION; GENETIC SCREENING; GENOTYPE; HEPATITIS C; HEPATITIS C VIRUS; HIGH THROUGHPUT SCREENING; HUMAN; HUMAN CELL; LIVER CELL; NONHUMAN; PRIORITY JOURNAL; REPLICON; RNA PROCESSING; SCORING SYSTEM; SIGNAL TRANSDUCTION; T LYMPHOCYTE; TRANSLATION INITIATION; VIRUS GENE; VIRUS REPLICATION;

ANTIGENS, NEOPLASM; ANTIVIRAL AGENTS; CELL LINE; COMPUTATIONAL BIOLOGY; GENOME, HUMAN; GENOMICS; HEPACIVIRUS; HEPATITIS C, CHRONIC; HIGH-THROUGHPUT SCREENING ASSAYS; HOST-PATHOGEN INTERACTIONS; HUMANS; INTERFERON-ALPHA; PHARMACOGENETICS; RECEPTOR, INTERFERON ALPHA-BETA; REPLICON; RIBONUCLEOPROTEINS, SMALL NUCLEAR; RNA, SMALL INTERFERING;

EID: 84855920255     PISSN: 01688278     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jhep.2011.07.026     Document Type: Article

References (29)

1. N. Bostan, and T. Mahmood An overview about hepatitis C: a devastating virus Crit Rev Microbiol 36 2010 91 133
2. D. Lavanchy The global burden of hepatitis C Liver Int 29 2009 74 81
3. J.G. McHutchison, E.J. Lawitz, M.L. Shiffman, A.J. Muir, G.W. Galler, and J. McCone Peginterferon alfa-2b or alfa-2a with ribavirin for treatment of hepatitis C infection N Engl J Med 361 2009 580 593
4. J.H. Hoofnagle, K.D. Mullen, D.B. Jones, V. Rustgi, A. Di Bisceglie, and M. Peters Treatment of chronic non-A, non-B hepatitis with recombinant human alpha interferon. A preliminary report N Engl J Med 315 1986 1575 1578 (Pubitemid 17055392)
5. E.C. Borden, G.C. Sen, G. Uze, R.H. Silverman, R.M. Ransohoff, and G.R. Foster Interferons at age 50: past, current and future impact on biomedicine Nat Rev Drug Discov 6 2007 975 990 (Pubitemid 350201788)
6. S.D. Der, A. Zhou, B.R. Williams, and R.H. Silverman Identification of genes differentially regulated by interferon alpha, beta, or gamma using oligonucleotide arrays Proc Natl Acad Sci USA 95 1998 15623 15628 (Pubitemid 29018750)
7. M.J. de Veer, M. Holko, M. Frevel, E. Walker, S. Der, and J.M. Paranjape Functional classification of interferon-stimulated genes identified using microarrays J Leukoc Biol 69 2001 912 920 (Pubitemid 32577892)
8. A.J. Sadler, and B.R. Williams Interferon-inducible antiviral effectors Nat Rev Immunol 8 2008 559 568 (Pubitemid 351913674)
9. E. Katsoulidis, Y. Li, H. Mears, and L.C. Platanias The p38 mitogen-activated protein kinase pathway in interferon signal transduction J Interferon Cytokine Res 25 2005 749 756 (Pubitemid 43068486)
10. S. Kaur, S. Uddin, and L.C. Platanias The PI3′ kinase pathway in interferon signaling J Interferon Cytokine Res 25 2005 780 787 (Pubitemid 43068489)
11. Y. Tanabe, N. Sakamoto, N. Enomoto, M. Kurosaki, E. Ueda, and S. Maekawa Synergistic inhibition of intracellular hepatitis C virus replication by combination of ribavirin and interferon-alpha J Infect Dis 189 2004 1129 1139 (Pubitemid 38457235)
12. A.W. Tai, Y. Benita, L.F. Peng, S.S. Kim, N. Sakamoto, and R.J. Xavier A functional genomic screen identifies cellular cofactors of hepatitis C virus replication Cell Host Microbe 5 2009 298 307
13. M. Ikeda, K. Abe, H. Dansako, T. Nakamura, K. Naka, and N. Kato Efficient replication of a full-length hepatitis C virus genome, strain O, in cell culture, and development of a luciferase reporter system Biochem Biophys Res Commun 329 2005 1350 1359 (Pubitemid 40568718)
14. T. Wakita, T. Pietschmann, T. Kato, T. Date, M. Miyamoto, and Z. Zhao Production of infectious hepatitis C virus in tissue culture from a cloned viral genome Nat Med 11 2005 791 796 (Pubitemid 41021213)
15. W. Lin, W.L. Tsai, R.X. Shao, G. Wu, L.F. Peng, and L.L. Barlow Hepatitis C virus regulates transforming growth factor beta1 production through the generation of reactive oxygen species in a nuclear factor kappaB-dependent manner Gastroenterology 138 2010 2509 2518 [2518 e1]
16. A. Birmingham, L.M. Selfors, T. Forster, D. Wrobel, C.J. Kennedy, and E. Shanks Statistical methods for analysis of high-throughput RNA interference screens Nat Methods 6 2009 569 575
17. S. Ekins, Y. Nikolsky, A. Bugrim, E. Kirillov, and T. Nikolskaya Pathway mapping tools for analysis of high content data Methods Mol Biol 356 2007 319 350
18. W. Huang da, B.T. Sherman, Q. Tan, J. Kir, D. Liu, and D. Bryant DAVID Bioinformatics Resources: expanded annotation database and novel algorithms to better extract biology from large gene lists Nucleic Acids Res 35 2007 W169 W175
19. F. Supek, N. Skunca, J. Repar, K. Vlahovicek, and T. Smuc Translational selection is ubiquitous in prokaryotes PLoS Genet 6 2010 e1001004
20. S. Killcoyne, G.W. Carter, J. Smith, and J. Boyle Cytoscape: a community-based framework for network modeling Methods Mol Biol 563 2009 219 239
21. W. Lin, W.H. Choe, Y. Hiasa, Y. Kamegaya, J.T. Blackard, and E.V. Schmidt Hepatitis C virus expression suppresses interferon signaling by degrading STAT1 Gastroenterology 128 2005 1034 1041 (Pubitemid 40523553)
22. L. Zhang, N. Jilg, R.X. Shao, W. Lin, D.N. Fusco, and H. Zhao IL28B inhibits hepatitis C virus replication through the JAK-STAT pathway J Hepatol 55 2011 289 298
23. M.Y. Koh, B.G. Darnay, and G. Powis Hypoxia-associated factor, a novel E3-ubiquitin ligase, binds and ubiquitinates hypoxia-inducible factor 1alpha, leading to its oxygen-independent degradation Mol Cell Biol 28 2008 7081 7095
24. M.C. Wahl, C.L. Will, and R. Luhrmann The spliceosome: design principles of a dynamic RNP machine Cell 136 2009 701 718
25. R.J. Lin, H.P. Yu, B.L. Chang, W.C. Tang, C.L. Liao, and Y.L. Lin Distinct antiviral roles for human 2′,5′-oligoadenylate synthetase family members against dengue virus infection J Immunol 183 2009 8035 8043
26. C.C. Ku, X.B. Che, M. Reichelt, J. Rajamani, A. Schaap-Nutt, and K.J. Huang Herpes simplex virus-1 induces expression of a novel MxA isoform that enhances viral replication Immunol Cell Biol 89 2011 173 182
27. I. Kohaar, A. Ploss, E. Korol, K. Mu, J.W. Schoggins, and T.R. O'Brien Splicing diversity of the human OCLN gene and its biological significance for hepatitis C virus entry J Virol 84 2010 6987 6994
28. O.V. Makarova, E.M. Makarov, and R. Luhrmann The 65 and 110 kDa SR-related proteins of the U4/U6.U5 tri-snRNP are essential for the assembly of mature spliceosomes EMBO J 20 2001 2553 2563 (Pubitemid 32452874)
29. S. Liu, R. Rauhut, H.P. Vornlocher, and R. Luhrmann The network of protein-protein interactions within the human U4/U6.U5 tri-snRNP RNA 12 2006 1418 1430 (Pubitemid 43990565)