Abstract
All RNA types are susceptible to ribonuclease (RNase) digestion, which might be a serious problem for several in vitro and in vivo applications. RNase resistance can be reached through chemical modifications or the selection of stable secondary structures via SELEX (systematic evolution of ligands by exponential enrichment). This chapter focuses on the selection of natural RNase-resistant RNAs, enriched by a selection process in the presence of RNase T1. Results of these investigations led to the identification of a particular structural motif, the tetraloop. Further applications could be the advised use of such motifs in order to reach higher stability of RNA molecules.
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References
Ellington AD, Szostak JW (1990) In vitro selection of RNA molecules that bind specific ligands. Nature 346:818–822
Greiner-Stöffele T, Forster HH, Hofmann HJ, Hahn U (2001) RNase-stable RNA: conformational parameters of the nucleic acid backbone for binding to RNase T1. Biol Chem 382:1007–1017
Jucker FM, Pardi A (1995) GNRA tetraloops make a U-turn. Rna 1:219–222
Klussmann S, Nolte A, Bald R, Erdmann VA, Furste JP (1996) Mirror-image RNA that binds D-adenosine. Nat Biotechnol 14:1112–1115
Kubik MF, Bell C, Fitzwater T, Watson SR, Tasset DM (1997) Isolation and characterization of 2′-fluoro-, 2′-amino-, and 2′-fluoro-/amino-modified RNA ligands to human IFN-gamma that inhibit receptor binding. J Immunol 159:259–267
Major F, Gautheret D, Cedergren R (1993) Reproducing the three-dimensional structure of a tRNA molecule from structural constraints. Proc Natl Acad Sci U S A 90:9408–9412
Nolte A, Klussmann S, Bald R, Erdmann VA, Furste JP (1996) Mirror-design of L-oligonucleotide ligands binding to L-arginine. Nat Biotechnol 14:1116–1119
Pagratis NC, Bell C, Chang YF, Jennings S, Fitzwater T, Jellinek D, Dang C (1997) Potent 2′-amino-, and 2′-fluoro-2′-deoxyribonucleotide RNA inhibitors of keratinocyte growth factor. Nat Biotechnol 15:68–73
Saran A, Pullman B, Perahia D (1973) Molecular orbital calculations on the conformation of nucleic acids and their constituents. VI. Conformation about the exocyclic C(4′)-C(5′) bond in alpha-nucleosides. Biochim Biophys Acta 299:497–499
Schürer H, Stembera K, Knoll D, Mayer G, Blind M, Forster HH, Famulok M, Welzel P, Hahn U (2001) Aptamers that bind to the antibiotic moenomycin A. Bioorg Med Chem 9:2557–2563
Steyaert J (1997) A decade of protein engineering on ribonuclease T1—atomic dissection of the enzyme-substrate interactions. Eur J Biochem 247:1–11
Tuerk C, Gold L (1990) Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science 249:505–510
Walter AE, Turner DH, Kim J, Lyttle MH, Muller P, Mathews DH, Zuker M (1994) Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding. Proc Natl Acad Sci U S A 91:9218–9222
Woese CR, Winker S, Gutell RR (1990) Architecture of ribosomal RNA: constraints on the sequence of “tetra-loops”. Proc Natl Acad Sci U S A 87:8467–8471
Zhang G, Simon AE (2003) A multifunctional turnip crinkle virus replication enhancer revealed by in vivo functional SELEX. J Mol Biol 326:35–48
Zuker M (1989) On finding all suboptimal foldings of an RNA molecule. Science 244:48–52
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© 2006 Springer-Verlag Berlin Heidelberg
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Kainz, S., Czaja, R., Greiner-Stöffele, T., Hahn, U. (2006). Selection of RNase-Resistant RNAs. In: Erdmann, V., Barciszewski, J., Brosius, J. (eds) RNA Towards Medicine. Handbook of Experimental Pharmacology, vol 173. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-27262-3_23
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DOI: https://doi.org/10.1007/3-540-27262-3_23
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-27261-8
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