RNA interference and human disease.

The completion of the human genome project has left researchers searching for an efficient method to study gene function in mammalian cells. RNA interference (RNAi) is an evolutionarily conserved post-transcriptional gene silencing (PTGS) mechanism mediated by double-stranded RNA (dsRNA). The dsRNA is processed into small duplex RNA molecules of approximately 21-22 nucleotides (nts) termed small interfering RNAs (siRNAs) by a RNase III enzyme called Dicer. Interaction of siRNAs with a multi-protein complex, termed the RNA-induced silencing complex (RISC), results in sequence specific association of the activated RISC complex with the cognate RNA transcript. This interaction leads to sequence-specific cleavage of the target transcript. Originally discovered in Caenorhabditis elegans, the study of RNAi in mammalian cells has blossomed in the last couple of years with the discovery that introduction of siRNA molecules directly into somatic mammalian cells circumvents the non-specific response vertebrate cells have against larger dsRNA molecules. Emerging as a powerful tool for reverse genetic analysis, RNAi is rapidly being applied to study the function of many genes associated with human disease, in particular those associated with oncogenesis and infectious disease. This review summarizes the mechanism of RNAi and provides an overview of its current applications in medicine.

[1]  H. Cerutti,et al.  Transgene and transposon silencing in Chlamydomonas reinhardtii by a DEAH-box RNA helicase. , 2000, Science.

[2]  V. Ambros,et al.  The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14 , 1993, Cell.

[3]  R. Bernards,et al.  Stable suppression of tumorigenicity by virus-mediated RNA interference. , 2002, Cancer cell.

[4]  Michael T. McManus,et al.  A lentivirus-based system to functionally silence genes in primary mammalian cells, stem cells and transgenic mice by RNA interference , 2003, Nature Genetics.

[5]  D. Jelinek,et al.  The effectiveness of double-stranded short inhibitory RNAs (siRNAs) may depend on the method of transfection. , 2002, Antisense & nucleic acid drug development.

[6]  Jürgen Bereiter-Hahn,et al.  Effect of RNA silencing of polo-like kinase-1 (PLK1) on apoptosis and spindle formation in human cancer cells. , 2002, Journal of the National Cancer Institute.

[7]  Phillip D. Zamore,et al.  RNA interference: listening to the sound of silence , 2001, Nature Structural Biology.

[8]  S. Camerini,et al.  Optimisation of transgene action at the post-transcriptional level: high quality parthenocarpic fruits in industrial tomatoes , 2002, BMC biotechnology.

[9]  P. Zipperlen,et al.  Functional genomic analysis of C. elegans chromosome I by systematic RNA interference , 2000, Nature.

[10]  Ronald H. A. Plasterk,et al.  A genetic link between co-suppression and RNA interference in C. elegans , 2000, Nature.

[11]  S. Bhatia,et al.  Expression of cyclic adenosine monophosphate response-element binding protein in acute leukemia. , 2002, Blood.

[12]  M. Rose,et al.  Doxycycline-induced expression of sense and inverted-repeat constructs modulates phosphogluconate mutase (Pgm) gene expression in adult Drosophila melanogaster , 2002, Genome Biology.

[13]  David Baltimore,et al.  Germline Transmission and Tissue-Specific Expression of Transgenes Delivered by Lentiviral Vectors , 2002, Science.

[14]  Y. Lazebnik,et al.  Confirming Specificity of RNAi in Mammalian Cells , 2002, Science's STKE.

[15]  M. Matzke,et al.  How and Why Do Plants Inactivate Homologous (Trans)genes? , 1995, Plant physiology.

[16]  E. Enerly,et al.  Reverse genetics in drosophila: From sequence to phenotype using UAS‐RNAi transgenic flies , 2002, Genesis.

[17]  Patrick J. Paddison,et al.  An epi-allelic series of p53 hypomorphs created by stable RNAi produces distinct tumor phenotypes in vivo , 2003, Nature Genetics.

[18]  C. Arias,et al.  Rotavirus gene silencing by small interfering RNAs , 2002, EMBO reports.

[19]  Juhana E. Heinonen,et al.  Silencing of Bruton's tyrosine kinase (Btk) using short interfering RNA duplexes (siRNA) , 2002, FEBS letters.

[20]  T. Pederson,et al.  Transcription of a human U6 small nuclear RNA gene in vivo withstands deletion of intragenic sequences but not of an upstream TATATA box. , 1989, Nucleic acids research.

[21]  A. Borkhardt,et al.  Killing of leukemic cells with a BCR/ABL fusion gene by RNA interference (RNAi) , 2002, Oncogene.

[22]  S. Reske,et al.  Gene silencing by adenovirus‐delivered siRNA , 2003, FEBS letters.

[23]  A. Ganser,et al.  Specific inhibition of bcr-abl gene expression by small interfering RNA. , 2003, Blood.

[24]  G. Veres,et al.  Retroviral vectors designed for targeted expression of RNA polymerase III-driven transcripts: a comparative study. , 1996, Gene.

[25]  A. Caudy,et al.  Fragile X-related protein and VIG associate with the RNA interference machinery. , 2002, Genes & development.

[26]  A. Aravin,et al.  Double-stranded RNA-mediated silencing of genomic tandem repeats and transposable elements in the D. melanogaster germline , 2001, Current Biology.

[27]  D. Baltimore,et al.  Inhibiting HIV-1 infection in human T cells by lentiviral-mediated delivery of small interfering RNA against CCR5 , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[28]  Mamoru Watanabe,et al.  Inhibition of intracellular hepatitis C virus replication by synthetic and vector‐derived small interfering RNAs , 2003, EMBO reports.

[29]  D. Baulcombe,et al.  Consistent gene silencing in transgenic plants expressing a replicating potato virus X RNA , 1997, The EMBO journal.

[30]  A. Fire,et al.  RNA as a target of double-stranded RNA-mediated genetic interference in Caenorhabditis elegans. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[31]  Phillip D Zamore,et al.  Ancient Pathways Programmed by Small RNAs , 2002, Science.

[32]  N. Déglon,et al.  Lentiviral-mediated RNA interference. , 2002, Human gene therapy.

[33]  Solomon H. Snyder,et al.  Biliverdin reductase: A major physiologic cytoprotectant , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[34]  A. Pasquinelli,et al.  MicroRNAs: deviants no longer. , 2002, Trends in genetics : TIG.

[35]  S. Brantl,et al.  Antisense-RNA regulation and RNA interference. , 2002, Biochimica et biophysica acta.

[36]  J. Milner,et al.  Selective silencing of viral gene expression in HPV-positive human cervical carcinoma cells treated with siRNA, a primer of RNA interference , 2002, Oncogene.

[37]  H. Vaucheret,et al.  Systemic acquired silencing: transgene‐specific post‐transcriptional silencing is transmitted by grafting from silenced stocks to non‐silenced scions , 1997, The EMBO journal.

[38]  H. Liber,et al.  Silencing expression of the catalytic subunit of DNA-dependent protein kinase by small interfering RNA sensitizes human cells for radiation-induced chromosome damage, cell killing, and mutation. , 2002, Cancer research.

[39]  William C Hahn,et al.  Lentivirus-delivered stable gene silencing by RNAi in primary cells. , 2003, RNA.

[40]  R. Carthew RNA Interference: The Fragile X Syndrome Connection , 2002, Current Biology.

[41]  M. Kumagai,et al.  Cytoplasmic inhibition of carotenoid biosynthesis with virus-derived RNA. , 1995, Proceedings of the National Academy of Sciences of the United States of America.

[42]  T. Giordano,et al.  RNAi: gene-silencing in therapeutic intervention. , 2002, Drug discovery today.

[43]  R. Gaynor,et al.  Identification of NF-κB-regulated genes induced by TNFα utilizing expression profiling and RNA interference , 2003, Oncogene.

[44]  A. Fire,et al.  Double-stranded RNA as a mediator in sequence-specific genetic silencing and co-suppression. , 1998, Trends in genetics : TIG.

[45]  P. Pelicci,et al.  The PML gene is not involved in the regulation of MHC class I expression in human cell lines. , 2003, Blood.

[46]  Judy Lieberman,et al.  RNA interference targeting Fas protects mice from fulminant hepatitis , 2003, Nature Medicine.

[47]  R. Wagner,et al.  Functional genomics Double-stranded RNA poses puzzle , 1998, Nature.

[48]  K. Kemphues,et al.  par-1, a gene required for establishing polarity in C. elegans embryos, encodes a putative Ser/Thr kinase that is asymmetrically distributed , 1995, Cell.

[49]  Robin C. Allshire,et al.  RNAi and Heterochromatin--a Hushed-Up Affair , 2002, Science.

[50]  T. Tuschl,et al.  RNA interference is mediated by 21- and 22-nucleotide RNAs. , 2001, Genes & development.

[51]  M. Tsuneoka,et al.  A Novel Myc Target Gene, mina53, That Is Involved in Cell Proliferation* , 2002, The Journal of Biological Chemistry.

[52]  P. Carbon,et al.  An unusually compact external promoter for RNA polymerase III transcription of the human H1RNA gene. , 2001, Nucleic acids research.

[53]  R. Lehmann,et al.  Targeted mRNA degradation by double-stranded RNA in vitro. , 1999, Genes & development.

[54]  Guiliang Tang,et al.  In vitro analysis of RNA interference in Drosophila melanogaster. , 2003, Methods.

[55]  R. Bernards,et al.  A System for Stable Expression of Short Interfering RNAs in Mammalian Cells , 2002, Science.

[56]  Inder M Verma,et al.  A general method for gene knockdown in mice by using lentiviral vectors expressing small interfering RNA , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[57]  M. Mann,et al.  miRNPs: a novel class of ribonucleoproteins containing numerous microRNAs. , 2002, Genes & development.

[58]  Ali Ehsani,et al.  Expression of small interfering RNAs targeted against HIV-1 rev transcripts in human cells , 2002, Nature Biotechnology.

[59]  Reuven Agami,et al.  Knockdown stands up. , 2002, Trends in biotechnology.

[60]  Phillip D Zamore,et al.  Evidence that siRNAs function as guides, not primers, in the Drosophila and human RNAi pathways. , 2002, Molecular cell.

[61]  W. Forrester,et al.  A DNA vector-based RNAi technology to suppress gene expression in mammalian cells , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[62]  J. Lieberman,et al.  siRNA-directed inhibition of HIV-1 infection , 2002, Nature Medicine.

[63]  J. Rossant,et al.  Targeted mutagenesis: analysis of phenotype without germ line transmission. , 1996, The Journal of clinical investigation.

[64]  S. Hammond,et al.  RNA interference: a promising approach to antiviral therapy? , 2002, Trends in molecular medicine.

[65]  R. Erickson Antisense transgenics in animals. , 1999, Methods.

[66]  P. Silver,et al.  Retrovirus-delivered siRNA , 2002, BMC biotechnology.

[67]  T. Tuschl,et al.  Functional anatomy of siRNAs for mediating efficient RNAi in Drosophila melanogaster embryo lysate , 2001, The EMBO journal.

[68]  K. Ui-Tei,et al.  Sensitive assay of RNA interference in Drosophila and Chinese hamster cultured cells using firefly luciferase gene as target , 2000, FEBS letters.

[69]  David C. Baulcombe,et al.  RNA as a target and an initiator of post-transcriptional gene silencing in trangenic plants , 1996, Plant Molecular Biology.

[70]  F. Holstege,et al.  Specific inhibition of gene expression using a stably integrated, inducible small‐interfering‐RNA vector , 2003, EMBO reports.

[71]  Virander S. Chauhan,et al.  Double‐stranded RNA‐mediated gene silencing of cysteine proteases (falcipain‐1 and ‐2) of Plasmodium falciparum , 2002, Molecular microbiology.

[72]  S. Tutton,et al.  Specific Double-Stranded RNA Interference in Undifferentiated Mouse Embryonic Stem Cells , 2001, Molecular and Cellular Biology.

[73]  K. Kiyosawa,et al.  RNA interference may be more potent than antisense RNA in human cancer cell lines , 2003, Clinical and experimental pharmacology & physiology.

[74]  A. Nordheim,et al.  AML1/MTG8 oncogene suppression by small interfering RNAs supports myeloid differentiation of t(8;21)-positive leukemic cells. , 2003, Blood.

[75]  A. Fire,et al.  dsRNA-mediated gene silencing in cultured Drosophila cells: a tissue culture model for the analysis of RNA interference. , 2000, Gene.

[76]  I. Verma,et al.  Transgenesis by lentiviral vectors: Lack of gene silencing in mammalian embryonic stem cells and preimplantation embryos , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[77]  Sebastian A. Leidel,et al.  Functional genomic analysis of cell division in C. elegans using RNAi of genes on chromosome III , 2000, Nature.

[78]  R. Meagher,et al.  Divergence and differential expression of soybean actin genes. , 1985, The EMBO journal.

[79]  D. Engelke,et al.  Effective expression of small interfering RNA in human cells , 2002, Nature Biotechnology.

[80]  T. Tuschl,et al.  Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells , 2001, Nature.

[81]  R. Plasterk,et al.  mut-7 of C. elegans, Required for Transposon Silencing and RNA Interference, Is a Homolog of Werner Syndrome Helicase and RNaseD , 1999, Cell.

[82]  R. Surabhi,et al.  RNA Interference Directed against Viral and Cellular Targets Inhibits Human Immunodeficiency Virus Type 1 Replication , 2002, Journal of Virology.

[83]  T. Doering,et al.  RNA interference in the pathogenic fungus Cryptococcus neoformans. , 2002, Genetics.

[84]  R. Medzhitov,et al.  Retroviral delivery of small interfering RNA into primary cells , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[85]  Michael T. McManus,et al.  RNA interference of influenza virus production by directly targeting mRNA for degradation and indirectly inhibiting all viral RNA transcription , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[86]  A. Fire,et al.  Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans , 1998, Nature.

[87]  M. A. Rector,et al.  Endogenous and Silencing-Associated Small RNAs in Plants Online version contains Web-only data. Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.003210. , 2002, The Plant Cell Online.

[88]  Haifan Lin,et al.  A novel class of evolutionarily conserved genes defined by piwi are essential for stem cell self-renewal. , 1998, Genes & development.

[89]  K. Taira,et al.  Comparison of the suppressive effects of antisense oligonucleotides and siRNAs directed against the same targets in mammalian cells. , 2003, Antisense & nucleic acid drug development.

[90]  H. L. Sänger,et al.  RNA-directed de novo methylation of genomic sequences in plants , 1994, Cell.

[91]  B. Reinhart,et al.  Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA , 2000, Nature.