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To learn more about phosphorothioates and antisense applications

INTRODUCTION

The use of oligonucleotides as selective inhibitors of gene expression offers a rational approach for the prevention and treatment of gene-mediated disorders. In the antisense approach, oligonucleotides complementary to specific sequences target mRNA or pre-mRNA involved in the development of the pathology. The therapeutic application of the antisense approach is currently under investigation in many different fields including oncology, hematopathogy and immunopathology (1-3). Nuclease degradation is one of the major limitation for the use of phosphodiester oligonucleotides as therapeutic agents since for example, their estimated half-life in 10% adult human serum is about 30 min (4, 5). Phosphorothioate oligonucleotides exhibit a chemical modification which dramatically reduces their sensitivity to nuclease degradation while preserving their activity as antisense agents.

STRUCTURE

In phosphorothioates, a single non-bridging oxygen atom is replaced by a sulfur
(Figure 1)

Figure 1:

Phosphorothioates: Figure 1

PHYSICAL CHARACTERISTICS

Phosphorothioates synthesis yields two isomers at each incorporation site resulting in 2n diastereoisomers, in which n is the number of linkage. This isomer mix results in a large peak in Reverse Phase HPLC. Also due to higher hydrophobicity, the retention time of phosphorothioates is longer compared to phosphodiesters. Due to the higher molecular weight of the sulfur atom (S = 32, O = 16), phosphorothioate oligonucleotides show a slight reduced mobility in polyacrylamide gel migration compared to phosphodiester oligonucleotides.

Phosphorothioate oligonucleotides do not kinase efficiently with P32 (5 to 10% incorporation).

Hybrids that phosphorothioate oligonucleotides form with complementary RNA or DNA sequences are less stable than those formed by phosphodiester oligonucleotides. Tm values decrease between 0.5¡É and 1¡É per phosphorothioate linkage.

PHOSPHOROTHIOATES ANTISENSE PROPERTIES

Among the different types of oligonucleotides exhibiting antisense activity in biological assays, only phosphorothioates currently undergo clinical trials (6,7). The advantages of phosphorothioate oligonucleotides include stability to both serum and cellular nucleases and like phosphodiester-containing oligonucleotides, they will support RNase H-mediated hydrolysis of the target mRNA (8).

Usually, antisense applications require large quantities of oligonucleotides. As phosphodiester oligonucleotides, phosphorothioates can be easily synthesized up to grams level, for preclinical and clinical applications.

QUALITY CONTROL

Purified and crude oligonucleotides are both controlled on denaturing polyacrylamide gels. The purification of phosphorothioate oligonucleotides is performed on Reverse Phase HPLC when 10 OD or more are needed. Purification of 1 OD is performed on polyacrylamide gel.

Reference

  1. Chen L, et al., (1998) - Proc Natl Acad Sci U S A.; 95(1): 195-200.
  2. Henry SP, et al., (1997) - Antisense Nucleic Acid Drug Dev.; 7(5): 503-510.
  3. Arima H, et al., (1997) - J Pharm Sci.; 86(10): 1079-1084.
  4. Eder P.S, et al., (1991) - Antisense Res. Dev. 1, 141-151.
  5. Wickstrom E. , (1986) - J. Biochem. Biophys. Methods 13, 97-102.
  6. Henry SP, et al. (1997) - Antisense Nucleic Acid Drug Dev.; 7(5): 473-481.
  7. Temsamani J, et al., (1997) - Biotechnol Appl Biochem.; 26( Pt 2): 65-71. Review.
  8. Ghosh M.K., et al., (1993) - Anticancer Drug Design 8, 15-32.

CONCLUSION

  • Phosphorothioate oligonucleotides are currently the most popular in the antisense field.

  • PROLIGO can supply you with both crude and purified phosphorothioates in quantities ranging from mgs to grams.

  • PROLIGO can also supply custom copolymeric oligonucleotides including phosphodiester - phosphorothioates adjacent regions in the same molecule.
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