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Phosphorothioate Oligodeoxynucleotide Analogues

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Oligodeoxynucleotides

Part of the book series: Topics in Molecular and Structural Biology ((TMSB))

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Abstract

Phosphorothioates contain a sulphur-for-oxygen substitution at phosphorus (Figure 5.1). In relation to the need for the development of chimeric oligo analogues for the antisense approach, the substitution of one sulphur atom for one oxygen atom is perhaps the most conservative chemical substitution that can be made at the phosphate moiety.

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References

  • Agrawal, S., Goodchild, J., Civeira, M. P. et al. (1988). Oligodeoxynucleoside phosphoramidates and phosphorothioates as inhibitors of human immunodeficiency virus. Proc. Natl Acad. Sci. USA, 85, 7079–7083

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Bryant, F. R., Bankovic, S. J., Sammons, D. and Frey, P. A. (1981). The stereochemical course of thiophosphoryl group transfer catalysed by T4 polynucleotide kinase. J. Biol. Chem., 256, 5965–5966

    CAS  PubMed  Google Scholar 

  • Burgers, M. and Eckstein, F. (1979). Diastereomers of 5′-O-adenosyl 3′-O-uridyl phosphorothioate: chemical synthesis and enzymatic properties. Biochemistry, 18, 592–596

    Article  CAS  PubMed  Google Scholar 

  • Caruthers, M. H. (1985). Gene synthesis machines: DNA chemistry and its uses. Science, N.Y., 230, 281–285

    Article  CAS  Google Scholar 

  • Cazenave, C., Stein, C. A., Loreau, N., Thuong, N. T., Neckers, L. M., Subasinghe, C., Hélène, C., Cohen, J. S. and Toulmé, J. J. (1989). Comparative inhibition of rabbit globin mRNA translation by modified antisense oligodeoxynucleotides, Nucl. Acids Res., 17, 4255–4273

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Connolly, B. A., Potter, B. V. L., Eckstein, F., Pingoud, A. and Grotjahn, L. (1984). Synthesis and characterization of an octanucleotide containing the EcoR1 recognition sequence with a phosphorothioate group at the cleavage site. Biochemistry, 23, 3443–3453

    Article  CAS  PubMed  Google Scholar 

  • Cosstick, R. and Eckstein, F. (1985). Synthesis of d(GC) and d(CG) octamers containing alternate phosphorothioate linkages: effect of the phosphorothioate group on the B-Z transition. Biochemistry, 24, 3630–3638

    Article  CAS  PubMed  Google Scholar 

  • Cruse, W. B. T., Salisbury, S. A., Brown, T., Cosstick, R., Eckstein, F. and Kennard, O. (1986). Chiral phosphorothioate analogs of B-DNA. J. Molec. Biol., 192, 891–905

    Article  CAS  PubMed  Google Scholar 

  • Dahlberg, J. E., Archambault, D., Cohen, J. S., Stein, C. A., Subasinghe, C., Matsukura, M., Broder, S. and Aaronson, S. A. (1989). Phosphorothioate oligodeoxynucleotides specifically inhibit the replication of lentiviruses, submitted for publication

    Google Scholar 

  • De Clercq, E., Eckstein, F., Sternbach, H. and Merigan, T. C. (1970). The antiviral activity of thio-phosphate substituted polynucleotides in vitro and in vivo. Virology, 42, 421–428

    Article  Google Scholar 

  • Eckstein, F. (1975). Investigation of enzyme mechanisms with nucleoside phosphorothioates. Angew. Chem. Int. Ed., 14, 160–166

    Article  CAS  Google Scholar 

  • Eckstein, F. (1979). Phosphorothioate analogs of nucleotides. Accts Chem. Res., 12, 204–210

    Article  CAS  Google Scholar 

  • Eckstein, F. (1985). Investigation of enzyme mechanisms with nucleoside phosphorothioates. Ann. Rev. Biochem., 54, 367–402

    Article  CAS  PubMed  Google Scholar 

  • Frey, P. A. and Sammons, R. D. (1985). Bond order and charge localization in nucleoside phosphorothioates. Science, N.Y., 228, 541–545

    Article  CAS  Google Scholar 

  • Froehler, B. C., Ng, P. G. and Matteucci, M. D. (1986). Synthesis of DNA via deoxynucleoside H-phosphonate. Nucl. Acids Res., 14, 5399–5407

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Gao, W., Stein, C. A., Cohen, J. S., Dutchman, G., and Cheng, Y. C., (1988). Effects of phosphorothioate oligodeoxynucleotides on herpes simplex virus type-2 induced DNA-polymerase. J. Biol. Chem., 264, 11521–1152

    Google Scholar 

  • Gao, W., Stein, C. A., Cohen, J. S., Dutchmann, G., and Cheng, Y. C., (1988b). Effects of phosphorothioate oligodeoxynucleotides on herpes simplex virus type-2 induced DNA-polymerase. J. Biol. Chem., 264, 11521–11521

    Google Scholar 

  • Iyengar, R., Eckstein, F. and Frey, D. (1984). Phosphorus-oxygen bond order in adenosine-5′-O-phosphorothioate dianion. J. Am. Chem. Soc., 106, 8309–8310

    Article  CAS  Google Scholar 

  • Koziolkiewicz, M., Uznanski, B., Stec, W. J. and Zon, G. (1986). P-chiral analogues of oligodeoxynucleotides: synthesis, stereochemistry, and enzyme studies. Chemica Scripta, 26, 251–260

    CAS  Google Scholar 

  • Labeit, S., Lehrach, H. and Goody, R. S. (1986). A new method of DNA sequencing using deoxynucleoside alpha-thiotriphosphates. DNA, 5, 173–177

    Article  CAS  PubMed  Google Scholar 

  • LaPlanche, L., James, T. L., Powell, C., Wilson, D. W., Uznanski, B., Stec, W. J., Summers, M. F. and Zon, G. (1986). Phosphorothioate modified oligodeoxy-nucleotides III. NMR and UV spectroscopic studies of the Rp-Rp, Sp-Rp, and Sp-Sp duplexes [d(GGsAATTCC)]2 derived from diastereoisomeric O-ethyl phosphorothioate. Nucl. Acids Res., 14, 9081–9093

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Loke, S. L., Stein, C. A., Zhang, X., Avigan, M., Cohen, J. S. and Neckers, L. M. (1988). Delivery of c-myc antisense phosphorothioate oligodeoxynucleotides to hematopoeitic cells in culture by liposome fusion: specific induction in c-myc protein expression correlates with inhibition of cell growth and DNA synthesis. Curr. Topics Microbiol. Immunol, 141, 282–289

    CAS  Google Scholar 

  • Loke, S. L., Stein, C. A., Zhang, X. H., Mori, K., Nakanishi, M., Subasinghe, C., Cohen, J. S. and Neckers, L. M. (1989) Characterization of oligonucleotide transport into living cells. Proc. Natl Acad. Sci. USA, 86, 3474–3478

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Majumdar, C., Stein, C. A., Cohen, J. S., Broder, S. and Wilson, S. H. (1989). Stepwise mechanism of HIV reverse transcriptase: primer function of phosphorothioate oligodeoxynucleotide. Biochemistry, 28, 1340–1346

    Article  CAS  PubMed  Google Scholar 

  • Marcus-Sekura, C., Woerner, A., Shinozuka, K., Zon, G. and Quinnan, G. (1987). Comparative inhibition of chloramphenicol acetyl transferase gene expression by antisense oligonucleotide analogs having alkylphosphotriester, methylphosphonate, and phosphorothioate linkages. Nucl. Acids Res., 15, 5749–5763

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Matsukura, M., Shinozuka, K., Zon, G., Mitsuya, M., Reitz, M., Cohen, J. S. and Broder, S. (1987). Phosphorothioate analogs of oligodeoxynucleotides: Novel inhibitors of replication and cytopathic effects of human immunodeficiency virus (HIV). Proc. Natl Acad. Sci. USA, 84, 7706–7710

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Matsukura, M., Zon, G., Shinozuka, K., Stein, C. A., Mitsuya, H., Cohen, J. S. and Broder, S. (1988). Phosphorothioate oligodeoxynucleotides as inhibitors of the replication of HIV. Gene, 72, 343–347

    Article  CAS  PubMed  Google Scholar 

  • Matsukura, M., Zon, G., Shinozuka, S., Robert-Guroff, M., Shimada, T., Stein, C. A., Mitsuya, H., Wong-Staal, F., Cohen, J. S. and Broder, S. (1989). Regulation of viral expression of HIV in vitro by an antisense phosphorothioate oligodeoxynucleotide against rev in chronically infected cells. Proc. Natl Acad. Sci. USA, 86, 4244–4248

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Mikolajczyk, M., Witczak, M., Wieczorek, N., Bokcy, G. and Strukhov, Y. T. (1976). Stereochemistry of organophosphorus cyclic compounds, Part IV. Synthesis and geometrical isomerism in cyclic five-membered phosphorus thio-acids. Crystal and molecular structure of the imidazolium salt of r-2-hydroxy-c-4-methyl-1,3,2-dioxaphospholan-2-thione. J. Chem. Soc. Perkin Trans., 1, 371–377

    Article  Google Scholar 

  • Mitsuya, H. and Broder, S. (1986). Inhibition of in vitro infectivity and cytopathic effect of HTLV-III/LAV by 2′,3′-dideoxynucleosides. Proc. Natl Acad. Sci. USA, 83, 1911–1915

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Nakamaye, K. L. and Eckstein, F. (1986). Inhibition of restriction endonuclease NciI cleavage by phosphorothioate groups and its application to oligonucleotide-directed mutagenesis. Nucl. Acids Res., 12, 9679–9698

    Article  Google Scholar 

  • Ott, J. and Eckstein, F. (1987). Protection of oligonucleotide primers against degradation by DNA polymerase. I. Biochemistry, 26, 8237–8241

    Article  CAS  PubMed  Google Scholar 

  • Potter, B. V. L., Connolly, B. A. and Eckstein, F. (1983). Synthesis and configurational analysis of a dinucleoside phosphate isotopically chiral at phosphorus: stereochemical course of Penicillium citrum nuclease P1 reaction. Biochemistry, 22, 1369–1377

    Article  CAS  PubMed  Google Scholar 

  • Potter, B. V. L. and Eckstein, F. (1984). Cleavage of phosphorothioate DNA by restriction endonucleases. J. Biol. Chem., 259, 14243–14248

    CAS  PubMed  Google Scholar 

  • Reed, J. C., Stein, C. A., Subasinghe, C. and Cohen, J. S. (1989). Specific inhibition of cellular proliferation by bcl-2 antisense oligodeoxynucleotides: comparison of normal and phosphorothioate oligodeoxynucleotides, submitted for publication

    Google Scholar 

  • Saenger, W. (1984). Principles of Nucleic Acid Structure. Springer-Verlag, New York

    Book  Google Scholar 

  • Sayers, J. R., Schmidt, W. and Eckstein, F. (1988). 5′-3′ exonucleases in phosphorothioate-based oligonucleotide directed mutagenesis. Nucl. Acids Res., 16, 791–802

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Stec, W. and Zon, G. (1985). Reversed-phase high-performance liquid chromatographic separation of diastereomeric phosphorothioate analogues of oligodeoxynucleotides and other backbone-modified congeners of DNA. J. Chromatog., 326, 263–280

    Article  CAS  Google Scholar 

  • Stec, W., Zon, G., Egan, V. and Stec, B. (1984). Automated solid-phase synthesis, separation and stereochemistry of phosphorothioate analogues of oligodeoxyribonucleotides. J. Am. Chem. Soc., 106, 6077–6079

    Article  CAS  Google Scholar 

  • Stein, C. A. and Cohen, J. S. (1988). Oligodeoxynucleotides as inhibitors of gene expression: a review. Cancer Res., 48, 2659–2668

    CAS  PubMed  Google Scholar 

  • Stein, C. A., Matsukura, M., Subasinghe, C., Broder, S. and Cohen, J. S. (1989b). Phosphorothioate oligodeoxynucleotides are potent sequence non-specific inhibitors of de novo infection by HIV. AIDS Res., in press

    Google Scholar 

  • Stein, C. A., Mori, K., Cohen, J. S. and Broder, S. (1989a). Synthesis and properties of phosphoroselenoate oligodeoxynucleotides (in preparation)

    Google Scholar 

  • Stein, C. A., Mori, K., Loke, S. L., Subasinghe, C., Shinozuka, K., Cohen, J. S. and Neckers, L. M. (1988c). Phosphorothioate and normal oligodeoxynucleotides with 5′-linked acridine: characterization and preliminary kinetics of cellular uptake. Gene, 72, 333–342

    Article  CAS  PubMed  Google Scholar 

  • Stein, C. A., Subasinghe, C., Morgan, N. Y., Neckers, L. and Cohen, J. S. (1988b). Phosphorothioate oligodeoxynucleotides are non-sequence specific inhibitors of translation in cell-free systems. Proceedings of the Conference on Perspectives in Therapeutic and Diagnostic Applications of Oligonucleotide Derivatives, Novosibirsk, USSR

    Google Scholar 

  • Stein, C. A., Subasinghe, C., Shinozuka, K. and Cohen, J. S. (1988a). Physicochemical properties of phosphorothioate oligodeoxynucleotides. Nucl. Acids Res., 16, 3209–3221

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Uznanski, B., Niewiarowski, W. and Stec, W. J. (1982). The chemical synthesis of the Rp and Sp diastereoisomers of thymidyl (3′-5′) thymidyl O, O-phosphorothioate. Tetrahed. Letts., 41, 4289–4292

    Article  Google Scholar 

  • Zon, G. (1988). Oligonucleotide analogs as potential chemotherapeutic agents. Pharm. Res., 5, 539–549

    Article  CAS  PubMed  Google Scholar 

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Stein, C.A., Cohen, J.S. (1989). Phosphorothioate Oligodeoxynucleotide Analogues. In: Cohen, J.S. (eds) Oligodeoxynucleotides. Topics in Molecular and Structural Biology. Palgrave, London. https://doi.org/10.1007/978-1-349-10869-5_6

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