Down-regulation of IRES containing 5'UTR of HCV genotype 3a using siRNAs

Virology Journal

Volumn 8, Issue , 2011, Pages

  Khaliq, Saba ^a   Jahan, Shah ^a   Pervaiz, Asim ^a   Ali Ashfaq, Usman ^a   Hassan, Sajida ^a  

^a UNIVERSITY OF THE PUNJAB   (Pakistan)

Author keywords

[No Author keywords available]

Indexed keywords

GREEN FLUORESCENT PROTEIN; MESSENGER RNA; OLIGONUCLEOTIDE; SMALL INTERFERING RNA; ANTIVIRUS AGENT; BIOLOGICAL PRODUCT; VIRUS RNA;

5' UNTRANSLATED REGION; ARTICLE; CLINICAL ASSESSMENT; COPY NUMBER VARIATION; DOWN REGULATION; DRUG TARGETING; GENE EXPRESSION; GENE SILENCING; GENE TARGETING; GENETIC TRANSFECTION; GENOTYPE; HEPATITIS C VIRUS; HUMAN; HUMAN CELL; HUMAN CELL CULTURE; IN VITRO STUDY; INOCULATION; INTERNAL RIBOSOME ENTRY SITE; PLASMID; PROTEIN EXPRESSION; RNA TRANSLATION; VIRUS GENE; VIRUS REPLICATION; WESTERN BLOTTING; CELL LINE; DRUG EFFECT; GENETICS; GROWTH, DEVELOPMENT AND AGING; LIVER CELL; METABOLISM; METHODOLOGY; PAKISTAN; PROTEIN SYNTHESIS; REPORTER GENE; STAINING; VIROLOGY; VIRUS LOAD;

HEPATITIS C VIRUS;

5' UNTRANSLATED REGIONS; ANTIVIRAL AGENTS; BIOLOGICAL PRODUCTS; CELL LINE; GENE SILENCING; GENES, REPORTER; GENOTYPE; GREEN FLUORESCENT PROTEINS; HEPACIVIRUS; HEPATOCYTES; HUMANS; PAKISTAN; PROTEIN BIOSYNTHESIS; RNA, SMALL INTERFERING; RNA, VIRAL; STAINING AND LABELING; VIRAL LOAD; VIRUS REPLICATION;

EID: 79955824558     PISSN: None     EISSN: 1743422X     Source Type: Journal    
DOI: 10.1186/1743-422X-8-221     Document Type: Article

References (56)

1. Hepatitis C virus biology. C Giannini C Brechot, Cell Death Differ 2003 10 Suppl 1 27 S38 12655344
2. Detection of antibodies to hepatitis C virus in dried blood spot samples from mothers and their offspring in Lahore, Pakistan. SP Parker HI Khan WD Cubitt, J Clin Microbiol 1999 37 2061 2063 10325381 (Pubitemid 29235280)
3. Epidemiology of hepatitis C. MJ Alter, Hepatology 1997 26 62S 65S 10.1002/hep.510260711 9305666 (Pubitemid 27388074)
4. Course and outcome of hepatitis C. JH Hoofnagle, Hepatology 2002 36 21 S29 12407573
5. Current therapy for hepatitis C: pegylated interferon and ribavirin. JG McHutchison MW Fried, Clin Liver Dis 2003 7 149 161 10.1016/S1089-3261(02)00077- 6 12691464 (Pubitemid 36350757)
6. Ribavirin and interferon alfa-2b in chronic hepatitis C: assessment of possible pharmacokinetic and pharmacodynamic interactions. S Khakoo P Glue L Grellier B Wells A Bell C Dash I Murray-Lyon D Lypnyj B Flannery K Walters GM Dusheiko, Br J Clin Pharmacol 1998 46 563 570 9862245 (Pubitemid 28522120)
7. Side effects of therapy for chronic hepatitis C. MW Russo MW Fried, Gastroenterology 2003 124 1711 1719 10.1016/S0016-5085(03)00394-9 12761728 (Pubitemid 36617688)
8. Frequency distribution of hepatitis C virus genotypes in different geographical regions of Pakistan and their possible routes of transmission. M Idrees S Riazuddin, BMC Infect Dis 2008 8 69 10.1186/1471-2334-8-69 18498666
9. Hepatitis C virus genotype 3a infection and hepatocellular carcinoma: Pakistan experience. M Idrees S Rafique I Rehman H Akbar MZ Yousaf S Butt Z Awan S Manzoor M Akram M Aftab B Khubaib S Riazuddin, World J Gastroenterol 2009 15 5080 5085 10.3748/wjg.15.5080 19860002
10. RNA interference: antiviral defense and genetic tool. BR Cullen, Nat Immunol 2002 3 597 599 10.1038/ni0702-597 12087412 (Pubitemid 34752463)
11. Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. SM Elbashir J Harborth W Lendeckel A Yalcin K Weber T Tuschl, Nature 2001 411 494 498 10.1038/35078107 11373684 (Pubitemid 32494397)
12. RNA interference is mediated by 21- and 22-nucleotide RNAs. SM Elbashir W Lendeckel T Tuschl, Genes Dev 2001 15 188 200 10.1101/gad.862301 11157775 (Pubitemid 32107664)
13. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. A Fire S Xu MK Montgomery SA Kostas SE Driver CC Mello, Nature 1998 391 806 811 10.1038/35888 9486653 (Pubitemid 28099681)
14. RNA interference. GJ Hannon, Nature 2002 418 244 251 10.1038/418244a 12110901 (Pubitemid 34773784)
15. RNA interference: the new somatic cell genetics? PJ Paddison GJ Hannon, Cancer Cell 2002 2 17 23 10.1016/S1535-6108(02)00092-2 12150821 (Pubitemid 41051018)
16. RNA interference - 2001. PA Sharp, Genes Dev 2001 15 485 490 10.1101/gad.880001 11238371 (Pubitemid 32205139)
17. Inhibition of hepatitis C virus infection in cell culture by small interfering RNAs. C Chevalier A Saulnier Y Benureau D Flechet D Delgrange F Colbere-Garapin C Wychowski A Martin, Mol Ther 2007 15 1452 1462 10.1038/sj.mt.6300186 17505476 (Pubitemid 47099302)
18. Inhibition of hepatitis C virus RNA replication by short hairpin RNA synthesized by T7 RNA polymerase in hepatitis C virus subgenomic replicons. H Hamazaki S Ujino N Miyano-Kurosaki K Shimotohno H Takaku, Biochem Biophys Res Commun 2006 343 988 994 10.1016/j.bbrc.2006.03.053 16566896
19. Small interfering RNA targeted to hepatitis C virus 5' nontranslated region exerts potent antiviral effect. T Kanda R Steele R Ray RB Ray, J Virol 2007 81 669 676 10.1128/JVI.01496-06 17079316 (Pubitemid 46067893)
20. Interference of hepatitis C virus RNA replication by short interfering RNAs. SB Kapadia A Brideau-Andersen FV Chisari, Proc Natl Acad Sci USA 2003 100 2014 2018 10.1073/pnas.252783999 12566571 (Pubitemid 36254565)
21. Inhibition of hepatitis C virus gene expression by small interfering RNAs using a tri-cistronic full-length viral replicon and a transient mouse model. M Kim D Shin SI Kim M Park, Virus Res 2006 122 1 10 10.1016/j.virusres.2006.05. 003 16979254 (Pubitemid 44634825)
22. Inhibition of HCV subgenomic replicons by siRNAs derived from plasmids with opposing U6 and H1 promoters. M Korf A Meyer D Jarczak C Beger MP Manns M Kruger, J Viral Hepat 2007 14 122 132 10.1111/j.1365-2893.2006.00793.x 17244252 (Pubitemid 46146707)
23. Alternative approaches for efficient inhibition of hepatitis C virus RNA replication by small interfering RNAs. J Kronke R Kittler F Buchholz MP Windisch T Pietschmann R Bartenschlager M Frese, J Virol 2004 78 3436 3446 10.1128/JVI.78.7.3436-3446.2004 15016866 (Pubitemid 38568285)
24. Small interfering RNA effectively inhibits protein expression and negative strand RNA synthesis from a full-length hepatitis C virus clone. R Prabhu P Vittal Q Yin E Flemington R Garry WH Robichaux S Dash, J Med Virol 2005 76 511 519 10.1002/jmv.20391 15977238 (Pubitemid 40943261)
25. Intracellular-diced dsRNA has enhanced efficacy for silencing HCV RNA and overcomes variation in the viral genotype. T Watanabe M Sudoh M Miyagishi H Akashi M Arai K Inoue K Taira M Yoshiba M Kohara, Gene Ther 2006 13 883 892 16496015
26. Inhibition of intracellular hepatitis C virus replication by synthetic and vector-derived small interfering RNAs. T Yokota N Sakamoto N Enomoto Y Tanabe M Miyagishi S Maekawa L Yi M Kurosaki K Taira M Watanabe H Mizusawa, EMBO Rep 2003 4 602 608 10.1038/sj.embor.embor840 12740604 (Pubitemid 36939952)
27. Consensus siRNA for inhibition of HCV genotype-4 replication. AR Zekri AA Bahnassy HM El-Din HM Salama, Virol J 2009 6 13 10.1186/1743-422X-6-13 19173711
28. Inhibition of core gene of HCV 3a genotype using synthetic and vector derived siRNAs. S Khaliq S Jahan B Ijaz W Ahmad S Asad A Pervaiz B Samreen M Khan S Hassan, Virol J 2010 7 318 10.1186/1743-422X-7-318 21073745
29. Inhibition of hepatitis C virus genotype 3a by siRNAs targeting envelope genes. S Khaliq S Jahan B Ijaz W Ahmad S Asad S Hassan, Arch Virol 2011 156 433 442 10.1007/s00705-010-0887-6 21161551
30. Small interfering RNA-mediated inhibition of hepatitis C virus replication in the human hepatoma cell line Huh-7. MY Seo S Abrignani M Houghton JH Han, J Virol 2003 77 810 812 10.1128/JVI.77.1.810-812.2003 12477890 (Pubitemid 36005024)
31. Isolation of a cDNA clone derived from a blood-borne non-A, non-B viral hepatitis genome. QL Choo G Kuo AJ Weiner LR Overby DW Bradley M Houghton, Science 1989 244 359 362 10.1126/science.2523562 2523562 (Pubitemid 19117877)
32. Overview of hepatitis C virus genome structure, polyprotein processing, and protein properties. KE Reed CM Rice, Curr Top Microbiol Immunol 2000 242 55 84 10592656 (Pubitemid 29467521)
33. Structural biology of hepatitis C virus. F Penin J Dubuisson FA Rey D Moradpour JM Pawlotsky, Hepatology 2004 39 5 19 10.1002/hep.20032 14752815 (Pubitemid 38461460)
34. Hepatitis C virus IRES RNA-induced changes in the conformation of the 40s ribosomal subunit. CM Spahn JS Kieft RA Grassucci PA Penczek K Zhou JA Doudna J Frank, Science 2001 291 1959 1962 10.1126/science.1058409 11239155 (Pubitemid 32216995)
35. A phylogenetically conserved stem-loop structure at the 5' border of the internal ribosome entry site of hepatitis C virus is required for cap-independent viral translation. M Honda MR Beard LH Ping SM Lemon, J Virol 1999 73 1165 1174 9882318 (Pubitemid 29036768)
36. Translation of human hepatitis C virus RNA in cultured cells is mediated by an internal ribosome-binding mechanism. C Wang P Sarnow A Siddiqui, J Virol 1993 67 3338 3344 8388503 (Pubitemid 23143708)
37. Sequences in the 5' nontranslated region of hepatitis C virus required for RNA replication. P Friebe V Lohmann N Krieger R Bartenschlager, J Virol 2001 75 12047 12057 10.1128/JVI.75.24.12047-12057.2001 11711595 (Pubitemid 33115877)
38. Internal ribosome entry site within hepatitis C virus RNA. K Tsukiyama-Kohara N Iizuka M Kohara A Nomoto, J Virol 1992 66 1476 1483 1310759
39. The pathway of HCV IRES-mediated translation initiation. GA Otto JD Puglisi, Cell 2004 119 369 380 10.1016/j.cell.2004.09.038 15507208 (Pubitemid 39423839)
40. Inhibition of hepatitis C virus genotype 3a by siRNAs targeting envelope genes. S Khaliq S Jahan B Ijaz W Ahmad S Asad S Hassan, Arch Virol 2011 156 433 442 10.1007/s00705-010-0887-6 21161551
41. HepG2 cells support viral replication and gene expression of hepatitis C virus genotype 4 in vitro. MK el-Awady AA Tabll YS el-Abd MM Bahgat HA Shoeb SS Youssef NG Bader el-Din e Redwan M el-Demellawy MH Omran WT el-Garf SA Goueli, World J Gastroenterol 2006 12 4836 4842 16937465 (Pubitemid 44323208)
42. RNAi as a new therapeutic strategy against HCV. S Khaliq SA Khaliq M Zahur B Ijaz S Jahan M Ansar S Riazuddin S Hassan, Biotechnol Adv 2010 28 27 34 10.1016/j.biotechadv.2009.08.004 19729057
43. Sequence analysis of the 5' noncoding region of hepatitis C virus. J Bukh RH Purcell RH Miller, Proc Natl Acad Sci USA 1992 89 4942 4946 10.1073/pnas.89.11.4942 1317578
44. Inhibition of hepatitis C virus translation and subgenomic replication by siRNAs directed against highly conserved HCV sequence and cellular HCV cofactors. M Korf D Jarczak C Beger MP Manns M Kruger, J Hepatol 2005 43 225 234 10.1016/j.jhep.2005.02.046 15964661 (Pubitemid 40956874)
45. Selective binding of hepatitis C virus core protein to synthetic oligonucleotides corresponding to the 5' untranslated region of the viral genome. Y Tanaka T Shimoike K Ishii R Suzuki T Suzuki H Ushijima Y Matsuura T Miyamura, Virology 2000 270 229 236 10.1006/viro.2000.0252 10772995 (Pubitemid 30256555)
46. Identification of in vivo interaction between Hepatitis C Virus core protein and 5' and 3' UTR RNA. KL Yu SI Jang JC You, Virus Res 2009 145 285 292 10.1016/j.virusres.2009.07.023 19665505
47. Complete replication of hepatitis C virus in cell culture. BD Lindenbach MJ Evans AJ Syder B Wolk TL Tellinghuisen CC Liu T Maruyama RO Hynes DR Burton JA McKeating CM Rice, Science 2005 309 623 626 10.1126/science.1114016 15947137 (Pubitemid 41033648)
48. Non-viral lipid-based nanoparticles for targeted cancer systemic gene silencing. JN Moreira A Santos V Moura MC Pedroso de Lima S Simoes, J Nanosci Nanotechnol 2008 8 2187 2204 10.1166/jnn.2008.319 18572631
49. Production of infectious hepatitis C virus in tissue culture from a cloned viral genome. T Wakita T Pietschmann T Kato T Date M Miyamoto Z Zhao K Murthy A Habermann HG Krausslich M Mizokami R Bartenschlager TJ Liang, Nat Med 2005 11 791 796 10.1038/nm1268 15951748 (Pubitemid 41021213)
50. Robust hepatitis C virus infection in vitro. J Zhong P Gastaminza G Cheng S Kapadia T Kato DR Burton SF Wieland SL Uprichard T Wakita FV Chisari, Proc Natl Acad Sci USA 2005 102 9294 9299 10.1073/pnas.0503596102 15939869 (Pubitemid 40923557)
51. Cell culture models and animal models of viral hepatitis. Part II: hepatitis C. C Guha SW Lee NR Chowdhury JR Chowdhury, Lab Anim (NY) 2005 34 39 47 (Pubitemid 41673181)
52. Direct infection and replication of naturally occurring hepatitis C virus genotypes 1, 2, 3 and 4 in normal human hepatocyte cultures. M Buck, PLoS One 2008 3 2660 10.1371/journal.pone.0002660 18628977
53. Hepatitis C virus replication in transfected and serum-infected cultured human fetal hepatocytes. CA Lazaro M Chang W Tang J Campbell DG Sullivan DR Gretch L Corey RW Coombs N Fausto, Am J Pathol 2007 170 478 489 10.2353/ajpath.2007.060789 17255316 (Pubitemid 47339385)
54. Serum-derived hepatitis C virus infection of primary human hepatocytes is tetraspanin CD81 dependent. S Molina V Castet L Pichard-Garcia C Wychowski E Meurs JM Pascussi C Sureau JM Fabre A Sacunha D Larrey J Dubuisson J Coste J McKeating P Maurel C Fournier-Wirth, J Virol 2008 82 569 574 10.1128/JVI.01443-07 17942559 (Pubitemid 350309172)
55. HCV envelope protein function is dependent on the peptides preceding the glycoproteins. T Bian Y Zhou S Bi W Tan Y Wang, Biochem Biophys Res Commun 2009 378 118 122 10.1016/j.bbrc.2008.11.024 19013428
56. Combined antiviral activity of interferon-alpha and RNA interference directed against hepatitis C without affecting vector delivery and gene silencing. Q Pan SD Henry HJ Metselaar B Scholte J Kwekkeboom HW Tilanus HL Janssen LJ van der Laan, J Mol Med 2009 87 713 722 10.1007/s00109-009-0470-3 19404587