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2011 | 16 | 1 |

Tytuł artykułu

The selection of aptamers specific for membrane molecular targets

Autorzy

Warianty tytułu

Języki publikacji

EN

Abstrakty

EN
A growing number of RNA aptamers have been selected experimentally using the SELEX combinatorial approach, and these aptamers have several advantages over monoclonal protein antibodies or peptides with respect to their applications in medicine and nanobiotechnology. Relatively few successful selections have been reported for membrane molecular targets, in contrast to the situation with non-membrane molecular targets. This review compares the procedures and techniques used in selections against membrane proteins and membrane lipids. In the case of membrane proteins, the selections were performed against soluble protein fragments, detergent-membrane protein mixed micelles, whole cells, vesicles derived from cellular membranes, and enveloped viruses. Liposomes were used as an experimental system for the selection of aptamers against membrane lipids. RNA structure-dependent aptamer binding for rafts in lipid vesicles was reported. Based on the selected aptamers against DOPC and the amino acid tryptophan, a specific passive membrane transporter composed of RNA was constructed. The determination of the selectivity of aptamers appears to be a crucial step in a selection, but has rarely been fully investigated. The selections, which use whole cells or vesicles derived from membranes, can yield aptamers not only against proteins but also against membrane lipids.

Słowa kluczowe

Wydawca

-

Rocznik

Tom

16

Numer

1

Opis fizyczny

p.25-39,fig.,ref.

Twórcy

autor
  • Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado, USA
autor
  • Department of Biotechnology and Molecular Biology, University of Opole, Opole, Poland

Bibliografia

  • 1. Yarus, M. Life from an RNA World: the ancestor within. Harvard University Press, New York, 2010.
  • 2. Connell, G.J., Illangsekare, M., Yarus, M. Three small ribooligonucleotides with specific arginine sites. Biochemistry 32 (1993) 5497-5502.
  • 3. Khvorova, A., Kwak, Y.-G., Tamkun, M., Majerfeld, I. and Yarus, M. RNAs that bind and change the permeability of phospholipid membranes. Proc. Natl. Acad. Sci. USA 96 (1999) 10649-10654.
  • 4. Yarus, M. A specific amino acid binding site composed of RNA. Science 240 (1988) 1751-1758.
  • 5. Roth, A., Winkler, W.C., Regulski, E.E., Lee, B.W.K., Lim, J., Jona, I., Barrick, J.E., Ritwik, A., Kim, J.N., Welz, R., Iwata-Reuyl, D. and Breaker, R.R. A riboswitch selective for the queuosine precursor preQ1 contains an unusually small aptamer domain. Nat. Struct. Mol. Biol. 14 (2007) 308-317.
  • 6. Spitale, R.C., Terelli, A.T., Krucinska, J., Bandarlan, V., Wedekind, J.E. The structural basis for recognition of the preQ0 metabolite by an unusually small riboswitch aptamer domain. J. Biol. Chem. 284 (2009) 11012-11016.
  • 7. Ellington, A.D. and Szostak, J. W. In vitro selection of RNA molecules that bind specific ligands. Nature 346 (1990) 818-822.
  • 8. Tuerk, C. and Gold, L. Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA-polymerase. Science 249 (1990) 505-510.
  • 9. Janas, T., Widmann, J.J., Knight, R. and Yarus, M. Simple, recurrent RNA binding sites for L-arginine. RNA (2010) 805-816.
  • 10. Bock, L.C., Griffin, L.C., Latham, J.A., Vermaas, E.H. and Toole, J.J. Selection of single-stranded DNA molecules that bind and inhibit human thrombin. Nature 355 (1992) 564-566.
  • 11. Anderson, P.C. and Mecozzi, S. Unusually short RNA sequences: design of a 13-mer RNA that selectively binds and recognizes theophylline. J. Am. Chem. Soc. 127 (2005) 5290-5291.
  • 12. Farokhzad, O.C., Cheng, J., Teply, B.A., Sherifi, I., Jon, S., Kantoff, P.W., Richie, J.P. and Langer, R. Targeted nanoparticle-aptamer bioconjugates for cancer chemotherapy in vivo. Proc. Natl. Acad. Sci. USA 103 (2006) 6315-6320.
  • 13. Song, S., Wang, L., Li, J., Zhao, J. and Fan, C. Aptamer-based biosensors. Trends Anal. Chem. 27 (2008) 108-117.
  • 14. Lee, J.O., So, H.M., Jeon, E.K., Chang, H., Won, K. and Kim, Y.H. Aptamers as molecular recognition elements for electrical nanobiosensors. Anal. Bioanal. Chem. 390 (2008) 1023-1032.
  • 15. Barbas, A.S. and White, R.R. The development and testing for cancer. Curr. Opin. Investig. Drugs 10 (2009) 572-578.
  • 16. Hicke, B.J., Marion, C., Chang, Y.F., Gould, T., Lynott, C.K., Parma, D., Schmidt, P.G. and Warren, S. Tenascin-C aptamers are generated using tumor cells and purified protein. J. Biol. Chem. 276 (2001) 48644-48654.
  • 17. Pestourie, C. Tavitian, B. and Duconge, F. Aptamets against extracellular targets for in vivo applications. Biochimie 87 (2005) 921-930.
  • 18. Janas, T., Janas, T. and Yarus, M. RNA, lipids and membranes. in: The RNA World III (Gesteland,, R., Cech, T.R. and Atkins, J., Eds.), Cold Spring Harbor Laboratory Press, 2006, 207-225.
  • 19. Shamah, S.M., Healy, J.M. and Cload, S.T. Complex target SELEX. Acc. Chem. Res. 41 (2008) 130-138.
  • 20. Li, N., Ebright, J.N., Stovall, G.M., Chen, X., Nguyen, H.H., Singh, A., Syrett, A. and Ellington, A.D. Technical and biological issues relevant to cell typing with aptamers. J. Proteome Res. 8 (2009) 2438-2448.
  • 21. Lupold, S.E., Hicke, B.J., Lin, Y. and Coffey, D.S. Identification and characterization of nuclease-stabilized RNA molecules that bind human prostate cancer cells via the prostate-specific membrane antigen. Cancer Res. 62 (2002) 4029-4033.
  • 22. Chen, C.h.B., Chernis, G.A., Hoang, V.Q. and Landgraf, R. Inhibition of heregulin signaling by an aptamer that preferentially binds to the oligomeric form of human epidermal growth factor receptor-3. Proc. Natl. Acad. Sci. USA 100 (2003) 9226-9231.
  • 23. Rentmeister, A., Bill, A., Wahle, T., Walter, J. and Famulok, M. RNA aptamers selectively modulate protein recruitment to the cytoplasmic domain of β-secretase BACE1 in vitro. RNA 12 (2006) 1650-1660.
  • 24. O’Connell, D., Koenig, A., Jennings, S., Hicke, B., Han, H.L., Fitzwater, T., Chang, Y.F., Varki, N., Parma, D. and Varki, A. Calcium-dependent oligonucleotide antagonists specific for L-selectin. Proc. Natl. Acad. Sci. USA 93 (1996) 5883-5887.
  • 25. Lee, H.K., Choi, Y.S., Park, Y.A. and Jeong, S. Modulation of oncogenic transcription and alternative splicing by β-catenin and an RNA aptamer in colon cancer cells. Cancer Res. 66 (2006) 10560-10566.
  • 26. Tanaka, Y., Akagi, K., Nakamura, Y. and Kozu, T. RNA aptamers targeting the carboxyl terminus of KRAS oncoprotein generated by an improved SELEX with isothermal RNA amplification. Oligonucleotides 17 (2007) 12-21.
  • 27. Jeon, S.H., Kayhan, B., Ben-Yedidia, T. and Arnon, R. A DNA aptamer prevents influenza infection by blocking the receptor binding region of the viral hemagglutinin. J. Biol. Chem. 279 (2004) 48410-48419.
  • 28. Ferreira, C.S.M., Matthews, C.S. and Missailidis, S. DNA aptamers that bind to MUC1 tumour marker: design and characterization of MUC1- binding single-stranded DNA aptamers. Tumor Biol. 27 (2006) 289-301.
  • 29. Daniels, D.A., Sohal, A.K., Rees, S. and Grisshammer, R. Generation of RNA aptamers to the G-protein-coupled receptor for neurotensin, NTS-1. Anal. Biochem. 305 (2002) 214-226.
  • 30. Joshi, R., Janagama, H., Dwivedi, H.P., Kumar, T.M.A.S., Jaykus, L.A. Schefers, J. and Sreevatsan, S. Selection, characterization, and application of DNA aptamers for the capture and detection of Salmonella enterica serovars. Mol. Cell. Probes 23 (2009) 20-28.
  • 31. Ulrich, H., Ippolito, J.E., Pagan, O.R., Eterovic, V.A., Hann, R.M., Shi, H., Lis, J.T., Eldefrawi, M.E. and Hess, G.P. In vitro selection of RNA molecules that displace cocaine from the membrane-bound nicotinic acetylcholine receptor. Proc. Natl. Acad. Sci. USA 95 (1998) 14051-14056.
  • 32. Morris, K.N., Jensen, K.B., Julin, C.M., Weil, M. and Gold, L. High affinity ligands from in vitro selection: complex target. Proc. Natl. Acad. Sci. USA 95 (1998) 2902-2907.
  • 33. Shangguan, D., Li, Y., Tang, Z., Cao, Z.C., Chen, H.W., Mallikaratchy, P., Sefah, K., Yang, C.J. and Tan, W. Aptamers evolved from live cells as effective molecular probes for cancer study. Proc. Natl. Acad. Sci. USA 103 (2006) 11838-11843.
  • 34. Homann, M. and Göringer, H.U. Combinatorial selection of high affinity RNA ligands to live African trypanosomes. Nucleic Acids Res. 27 (1999) 2006-2014.
  • 35. Blank, M., Weinschenk, T., Priemer, M. and Schluesener, H. Systematic evolution of DNA aptamer binding to rat brain tumor microvessels. J. Biol. Chem. 276 (2001) 16464-16468.
  • 36. Mallikaratchy, P., Tang, Z., Kwame, S., Meng, L., Shangguan, D. and Tan, W. Aptamer directly evolved from live cells recognizes membrane bound immunoglobin heavy mu chain in Burkitt’s lymphoma cells. Mol. Cell. Proteomics 6 (2007) 2230-2238.
  • 37. Shangguan, D., Cao, Z., Meng, L., Mallikaratchy, P., Sefah, K., Wang, H., Li, Y. and Tan, W. Cell-specific aptamer probes for membrane protein elucidation in cancer cells. J. Proteome Res. 7 (2008) 2133-2139.
  • 38. Berezovski, M.V., Lechmann, M., Musheev, M.U., Mak, T.W. and Krylov, S.N. Aptamer-facilitated biomarker discovery (AptaBiD). J. Am. Chem. Soc. 130 (2008) 9137-9143.
  • 39. Ulrich, H., Magdesian, M.H., Alves, M.J.M. and Colli, W. In vitro selection of RNA aptamers that bind to cell adhesion receptors of Trypanosoma cruzi and inhibit cell invasion. J. Biol. Chem. 277 (2002) 20756-20762.
  • 40. Cerchia, L., Duconge, F., Pestourie, C., Boulay, J., Aissouni, Y., Gombert, K., Tavitian, B., de Franciscis, V. and Libri, D. Neutralizing aptamers from whole-cell SELEX inhibit the RET receptor tyrosine kinase. PLOS Biol. 3 (2005) 697-704.
  • 41. Gopinath, S.C.B., Misono, T.S., Kawasaki, K., Mizuno, T., Imai, M., Odegiri, T. and Kumar, P.K.R. An RNA aptamer that distinguishes between closely related human influenza viruses and inhibits haemagglutininmediated membrane fusion. J. Gen. Virol. 87 (2006) 479-487.
  • 42. Ohuchi, S.P., Ohtsu, T. and Nakamura, Y. Selection of RNA aptamers against recombinant transforming growth factor-β type III receptor displayed on cell surface. Biochimie 88 (2006) 897-904.
  • 43. Sazani, P.L., Larraide, R. and Szostak, J.W. A small aptamer with strong and specific recognition of the triphosphate of ATP. J. Am. Chem Soc. 126 (2004) 8370-8371.
  • 44. Zimmerman, G.R, Jenison, R.D., Wick, C.L., Simorre, J.P. and Pardi, A. Interlocking structural motifs mediate molecular discrimination by a theophylline-binding RNA. Nat. Struct. Biol. 4 (1997) 644-649.
  • 45. Majerfeld, I. and Yarus, M. An RNA pocker for an aliphatic hydrophobe. Nature Struct. Biol. 1 (1994) 287-292.
  • 46. Majerfeld, I. and Yarus, M. Isoleucine:RNA sites with associated coding sequences. RNA 4 (1998) 471-478.
  • 47. Gilbert, B.A., Sha, M., Wathen, S.T. and Rando, R.R. RNA aptamers that specifically bind to a K Ras-derived farnesylated peptide. Bioorg. Med. Chem. 5 (1997) 1115-1122.
  • 48. Sussman, D., Nix, J.C. and Wilson, C. The structural basis for molecular recognition by the vitamin B12 RNA aptamer. Nat. Struct. Biol. 7 (2000) 53-57.
  • 49. Illangasekare, M. and Yarus, M. Phenylalanine-binding RNAs and genetic code evolution. J. Mol. Evol. 54 (2002) 298-311.
  • 50. Betat, H., Vogel, S., Struhalla, M., Förster, H.H., Famulok, M., Welzel, P. and Hahn, U. Aptamers that recognize the lipid moiety of the antibiotic moenomycin A. Biol. Chem. 384 (2003) 1497-1500.
  • 51. Brockstedt, U., Uzarowska, A., Montpetit, A., Pfau, W. and Labuda, D. In vitro evolution of RNA aptamers recognizing carcinogenic aromatic amines. Biochem. Biophys. Res Commun. 313 (2004) 1004-1008.
  • 52. Janas, T., Janas, T. and Yarus, M. Specific RNA binding to ordered phospholipid bilayers. Nucleic Acids Res. 34 (2006) 2128-2136.
  • 53. Vlassov, A., Khvorova, A., and Yarus, M. Binding and disruption of phosholipid bilayers by supramolecular RNA complexes. Proc. Natl. Acad. Sci. USA 98 (2001) 7706-7711.
  • 54. Janas, T. and Yarus, M. Visualization of membrane RNAs. RNA 9 (2003) 1353-1361.
  • 55. Janas, T., Janas, T. and Yarus, M. A membrane transporter for tryptophan composed of RNA. RNA 10 (2004) 1541-1549.
  • 56. Janas, T. and Janas, T. A Search for membrane RNAs that can inhibit formation of toxic amyloid aggregates. Sie Foundation Symposium, Aurora, 2006, 13.

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