Abstract
Exon-skipping antisense oligonucleotides (ASOs) can be used to knockdown the expression of an undesired gene or specific gene isoform. This chapter discusses the potential therapeutic applications of the technique and provides a sample protocol for inducing exon-skipping in Apolipoprotein B in vitro, as well as a protocol for quantifying exon-skipping using real-time PCR.
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References
Maquat L, Carmichael G (2001) Quality control of mRNA function. Cell 104:173–176
McManus MT, Sharp PA (2002) Gene silencing in mammals by small interfering RNAs. Nat Rev Genet 3:737–747
Grunweller A, Wyszko E, Bieber B, Jahnel R, Erdmann VA, Kurreck J (2003) Comparison of different antisense strategies in mammalian cells using locked nucleic acids, 2′-O-methyl RNA, phosphorothioates and small interfering RNA. Nucleic Acids Res 31:3185–3193
Summerton J (1999) Morpholino antisense oligomers: the case for an RNase H-independent structural type. Biochim Biophys Acta 1489:141–158
Draper BW, Morcos PA, Kimmel CB (2001) Inhibition of zebrafish fgf8 pre-mRNA splicing with morpholino oligos: a quantifiable method for gene knockdown. Genesis 30:154–156
Seeley M, Huang W, Chen Z, Wolff WO, Lin X, Xu X (2007) Depletion of zebrafish titin reduces cardiac contractility by disrupting the assembly of Z-discs and A-bands. Circ Res 100:238–245
Madsen EC, Morcos PA, Mendelsohn BA, Gitlin JD (2008) In vivo correction of a Menkes disease model using antisense oligonucleotides. Proc Natl Acad Sci USA 105:3909–3914
Gore AV, Maegawa S, Cheong A, Gilligan PC, Weinberg ES, Sampath K et al (2005) The zebrafish dorsal axis is apparent at the four-cell stage. Nature 438:1030–1035
Mulamba GB, Hu A, Azad RF, Anderson KP, Coen DM (1998) Human cytomegalovirus mutant with sequence-dependent resistance to the phosphorothioate oligonucleotide fomivirsen (ISIS 2922). Antimicrob Agents Chemother 42:971–973
Crooke S (2004) Progress in antisense technology. Annu Rev Med 55:61–95
Rayburn ER, Zhang R (2008) Antisense, RNAi, and gene silencing strategies for therapy: mission possible or impossible? Drug Discov Today 13:513–521
Chester A, Scott J, Anant S, Navaratnam R (2000) RNA editing: cytidine to uridine conversion in apolipoprotein B mRNA. Biochim Biophys Acta 1494:1–13
Soutschek J, Akinc A, Bramlage B, Charisse K, Constien R, Donoghue M et al (2004) Therapeutic silencing of an endogenous gene by systemic administration of modified siRNAs. Nature 432:173–178
Zimmermann T, Lee A, Akinc A, Bramlage B, Bumcrot D, Fedoruk MN et al (2006) RNAi-mediated gene silencing in non-human primates. Nature 441:111–114
Raal FJ, Santos RD, Blom DJ, Marais AD, Charng MJ, Cromwell WC et al (2010) Mipomersen, an apolipoprotein B synthesis inhibitor, for lowering of LDL cholesterol concentrations in patients with homozygous familial hypercholesterolaemia: a randomised, double-blind, placebo-controlled trial. Lancet 375:998–1006
Khoo B, Roca X, Chew SL, Krainer AR (2007) Antisense oligonucleotide-induced alternative splicing of the APOB mRNA generates a novel isoform of APOB. BMC Mol Biol 8:3
Glueck CJ, Gartside PS, Mellies MJ, Steiner PM (1977) Familial hypobeta-lipoproteinemia: studies in 13 kindreds. Trans Assoc Am Phys 90:184–203
Kahn JA, Glueck CJ (1978) Familial hypobetalipoproteinemia. Absence of atherosclerosis in a postmortem study. JAMA 240:47–48
Krul E, Tang J, Kettler T, Clouse RE, Schonfeld G (1992) Lengths of truncated forms of apolipoprotein B (apoB) determine their intestinal production. Biochem Biophys Res Commun 189:1069–1076
Eisenhauer EA (2001) From the molecule to the clinic – inhibiting HER2 to treat breast cancer. N Engl J Med 344:841–842
Wan J, Sazani P, Kole R (2009) Modification of HER2 pre-mRNA alternative splicing and its effects on breast cancer cells. Int J Cancer 124:772–777
Tyson-Capper AJ, Europe-Finner GN (2006) Novel targeting of cyclooxygenase-2 (COX-2) pre-mRNA using antisense morpholino oligonucleotides directed to the 3′ acceptor and 5′ donor splice sites of exon 4: suppression of COX-2 activity in human amnion-derived WISH and myometrial cells. Mol Pharmacol 69:796–804
Towers GJ (2007) The control of viral infection by tripartite motif proteins and cyclophilin A. Retrovirology 4:40
Ittig D, Liu S, Renneberg D, Schümperli D, Leumann CJ (2004) Nuclear antisense effects in cyclophilin A pre-mRNA splicing by oligonucleotides: a comparison of tricyclo-DNA with LNA. Nucleic Acids Res 32:346–353
Roche Applied Science (2010) Universal ProbeLibrary Assay Design Center. Roche Applied Science. https://www.roche-applied-science.com/sis/rtpcr/upl/index.jsp?id=uplct_030000. Accessed 26 Aug 2010
Jarvis R (2005) Optimizing siRNA transfection for RNAi. Ambion TechNotes 12:18–20
Nanodrop Spectrophotometers (2009) NanoDrop Spectrophotometers: 260/280 and 260/230 Ratios. Nanodrop.com. http://www.nanodrop.com/Library/T009-NanoDrop%201000-&-NanoDrop%208000-Nucleic-Acid-Purity-Ratios.pdf. Accessed 24 Aug 2010
Bustin SA, Benes V, Garson JA, Hellemans J, Huggett J, Kubista M et al (2009) The MIQE guidelines: minimum information for publication of quantitative real-time PCR experiments. Clin Chem 55:611–622
Vandenbroucke II, Vandesompele J, Paepe AD, Messiaen L (2001) Quantification of splice variants using real-time PCR. Nucleic Acids Res 29:E68-8
Chang Bioscience (2010) DNA/RNA/Protein/Chemical Molecular Weight Calculator. http://www.changbioscience.com/genetics/mw.html. Accessed 26 Aug 2010
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Disterer, P., Khoo, B. (2012). Antisense-Mediated Exon-Skipping to Induce Gene Knockdown. In: Aartsma-Rus, A. (eds) Exon Skipping. Methods in Molecular Biology, vol 867. Humana Press. https://doi.org/10.1007/978-1-61779-767-5_19
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DOI: https://doi.org/10.1007/978-1-61779-767-5_19
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