Hybridization-based fluorescence assay allows quantitation of single-stranded oligodeoxynucleotides in low nanomolar range

Analytical Biochemistry

Volumn 328, Issue 1, 2004, Pages 93-95

  Kandimalla, Ekambar R ^a   Pandey, Rajendra K ^a   Agrawal, Sudhir ^a  

^a HYBRIDON INC   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOCHEMISTRY;

FLUORESCENCE ASSAY; NANOMOLAR RANGE; OLIGODEOXYNUCLEOTIDES;

CHEMISTRY;

ETHIDIUM BROMIDE; OLIGODEOXYNUCLEOTIDE DERIVATIVE; OLIGODEOXYNUCLEOTIDE PHOSPHOROTHIOATE; SINGLE STRANDED DNA;

ARTICLE; FLUORESCENCE; FLUORESCENCE ANALYSIS; HYBRIDIZATION; PRIORITY JOURNAL;

EID: 1842635678     PISSN: 00032697     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ab.2004.01.005     Document Type: Article

References (20)

1. Pirollo K.F., Rait A., Sleer L.S., Chang E.H. Antisense therapeutics: from theory to clinical practice. Pharmacol. Ther. 99:2003;55-77.
2. Chen H.X. Clinical development of antisense oligonucleotides as anti-cancer therapeutics. Methods Mol. Med. 75:2003;621-636.
3. Agrawal S., Kandimalla E.R. Antisense and/or immunostimulatory oligonucleotide therapeutics. Curr. Cancer Drug Targets. 1:2001;197-209.
4. Temsamani J., Kubert M., Agrawal S. A rapid method for quantitation of oligodeoxynucleotide phosphorothioates in biological fluids and tissues. Anal. Biochem. 215:1993;54-58.
5. Yu R.Z., Baker B., Chappel A., Geary R.S., Cheung E., Levin A.A. Development of an ultrasensitive noncompetitive hybridization-ligation enzyme-linked immunosorbent assay for the determination of phosphorothioate oligodeoxynucleotide in plasma. Anal. Biochem. 304:2002;15-25.
6. Bourque A.J., Cohen A.S. Quantitative analysis of phosphorothioate oligonucleotides in biological fluids using direct injection fast anion-exchange chromatography and capillary gel electrophoresis. J. Chromatogr. B Biomed. Appl. 662:1994;343-349.
7. O'Connor G., Dawson C., Woolford A., Webb K.S., Catterick T. Quantitation of oligonucleotides by phosphodiesterase digestion followed by isotope dilution mass spectrometry: proof of concept. Anal. Chem. 74:2002;3670-3676.
8. Morgan A.R., Lee J.S., Pulleyblank D.E., Murray N.L., Evans D.H. Ethidium fluorescence assays. Part 1. Physicochemical studies. Nucleic Acids Res. 7:1979;547-569.
9. Labarca C., Paigen K. A simple, rapid, and sensitive DNA assay procedure. Anal. Biochem. 102:1980;344-352.
10. Bahrami A.R., Dickman M.J., Matin M.M., Ashby J.R., Brown P.E., Conroy M.J., Fowler G.J., Rose J.P., Sheikh Q.I., Yeung A.T., Hornby D.P. Use of fluorescent DNA-intercalating dyes in the analysis of DNA via ion-pair reversed-phase denaturing high-performance liquid chromatography. Anal. Biochem. 309:2002;248-252.
11. Waring M.J. Complex formation between ethidium bromide and nucleic acids. J. Mol. Biol. 13:1965;269-282.
12. LePecq J.B., Paoletti C. A fluorescent complex between ethidium bromide and nucleic acids. Physical-chemical characterization. J. Mol. Biol. 27:1967;87-106.
13. Muller W., Gautier F. Interactions of heteroaromatic compounds with nucleic acids. A-T-specific non-intercalating DNA ligands. Eur. J. Biochem. 54:1975;385-394.
14. Comings D.E. Mechanisms of chromosome banding. VIII. Hoechst 33258-DNA interaction. Chromosoma. 52:1975;229-243.
15. Kandimalla E.R., Manning A., Zhao Q., Shaw D.R., Byrn R.A., Sasisekharan V., Agarawal S. Mixed backbone antisense oligonucleotides: design, biochemical and biological properties of oligonucleotides containing 2'-5'-ribo- and 3'-5'-deoxyribonucleotide segments. Nucleic Acids Res. 25:1997;370-378.
16. Agrawal S., Temsamani J., Tang J.Y. Pharmacokinetics, biodistribution, and stability of oligodeoxynucleotide phosphorothioates in mice. Proc. Natl. Acad. Sci. USA. 88:1991;7595-7599.
17. Agrawal S. Antisense oligonucleotides: towards clinical trials. Trends Biotechnol. 14:1996;376-387.
18. Rengarajan K., Cristol S.M., Mehta M., Nickerson J.M. Quantifying DNA concentrations using fluorometry: a comparison of fluorophores. Mol. Vis. 8:2002;416-421.
19. Levy M.S., Lotfian P., O'Kennedy R., Lo-Yim M.Y., Shamlou A. Quantitation of supercoiled circular content in plasmid DNA solutions using a fluorescence-based method. Nucleic Acids Res. 28:2000;e57.
20. Ahn S.J., Costa J., Emanuel J.R. PicoGreen quantitation of DNA: effective evaluation of samples pre- or post-PCR. Nucleic Acids Res. 24:1996;2623-2625.