Energy Transfer Fluorescent Labels for DNA Sequencing and Analysis

  • Jin Xie
  • Su-Chun Hung
  • Alexander N. Glazer
  • Richard A. Mathies
Part of the Topics in Fluorescence Spectroscopy book series (TIFS, volume 7)


Fluorescence resonance energy transfer technology has done much to enhance DNA sequencing capabilities and the Human Genome Project. The enhanced emission intensities and improved spectral purity provided by ET primers and terminators have led to a major improvement in the performance of automated DNA sequencers. Fluorescent ET dye-labels should be equally valuable for the analysis of PCR fragments, restriction fragments, single nucleotide polymor-phisms, and microsatellites in research, pharmaceutical, and health care diagnostic applications.


Cystic Fibrosis Transmembrane Conductance Regulator Fluorescence Resonance Energy Transfer Short Tandem Repeat Fluorescence Quantum Yield Polymerase Chain Reaction Amplicon 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.


Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.


  1. 1.
    Stryer, L. Annu. Rev. Biochem. 47, 819–846, 1978.CrossRefGoogle Scholar
  2. 2.
    Collins, F., Patrinos, A., Jordan, E., Chakravarti, A., Gesteland, R., Walters, L., and the members of the DOE and NIH planning groups. New goals for the U.S. Human Genome Project: 1998–2003. Science 282, 682–689, 1998.CrossRefGoogle Scholar
  3. 3.
    Kheterpal, I., and Mathies, R. A. Anal. Chem. 71, 31A–37A, 1999.Google Scholar
  4. 4.
    Glazer, A. N., and Mathies, R. A. Curr. Opin. Biotechnol. 8, 94–102, 1997.CrossRefGoogle Scholar
  5. 5.
    Ju, J., Glazer, A. N., and Mathies, R. A. Nature Med. 2, 246–249, 1996.Google Scholar
  6. 6.
    Ju, J., Ruan, C., Fuller, C. W., Glazer, A. N., and Mathies, R. A. Proc. Natl. Acad. Sci. USA 92, 4347–4351, 1995.Google Scholar
  7. 7.
    Smith, L. M., Sanders, J. Z., Kaiser, R. J., Hughes, P., Dodd, C., Connell, C. R., Heiner, C., Kent, S. B. H., and Hood, L. E. Nature 321, 674–679, 1986.Google Scholar
  8. 8.
    Prober, J. M., Trainor, G. L., Dam, R. J., Hobbs, F. W., Robertson, C. W., Zagursky, R. J., Cocuzza, A. J., Jensen, M. A., and Baumeister, K. Science 238, 336–341, 1987.Google Scholar
  9. 9.
    Hung, S.-C., Ju, J., Mathies, R. A., and Glazer, A. N. Anal. Biochem. 243, 15–27, 1996.CrossRefGoogle Scholar
  10. 10.
    Metzker, M. L., Lu, J., and Gibbs, R. A. Science 271, 1420–1422, 1996.Google Scholar
  11. 11.
    Amersham Life Science News, 1–7, 1999.Google Scholar
  12. 12.
    Lee, L. G., Spurgeon, S. L., Heiner, C. R., Benson, S. C., Rosenblum, B. B., Menchen, S. M., Graham, R. J., Constantinescu, A., Upadhya, K. G., and Cassel, J. M. Nucleic Acids Res. 25, 2816–2822, 1997.Google Scholar
  13. 13.
    Rösenblum, B. B., Lee, L. G., Spurgeon, S. L., Khan, S. H., Menchen, S. M., Heiner, C. R., and Chen, S. M. Nucleic Acids Res. 25, 4500–4504, 1997.Google Scholar
  14. 14.
    Förster, T. Delocalized Excitation and Excitation Transfer. New York; Academic Press, 1965.Google Scholar
  15. 15.
    Stryer, L., and Haugland, R. Proc. Natl. Acad. Sci. USA 74, 5463–5467, 1967.Google Scholar
  16. 16.
    Sanger, F., Nicklen, S., and Coulson, A. R. Proc. Natl. Acad. Sci. USA 74, 5463–5467, 1977.Google Scholar
  17. 17.
    Hung, S.-C., Ju, J., Mathies, R. A., and Glazer, A. N. Anal. Biochem. 238, 165–170, 1996.CrossRefGoogle Scholar
  18. 18.
    Carson, S., Cohen, A. S., Belenkii, A., Ruiz-Martinez, M. C., Berka, J., and Karger, B. L. Anal. Chem. 65, 3219–3226, 1993.CrossRefGoogle Scholar
  19. 19.
    Takahashi, S., Murakami, K., Anazawa, T., and Kambara, H. Anal. Chem. 66, 1021–1026, 1994.Google Scholar
  20. 20.
    Tu, O., Knott, T., Marsh, M., Bechtol, K., Harris, D., Barker, D., and Bashkin, J. Nucleic Acids Res. 26, 2797–2802, 1998.CrossRefGoogle Scholar
  21. 21.
    Ju, J., Kheterpal, I., Scherer, J. R., Ruan, C., Fuller, C. W., Glazer, A. N., and Mathies, R. A. Anal. Biochem. 231, 131–140, 1995.CrossRefGoogle Scholar
  22. 22.
    Hung, S.-C., Mathies, R. A., and Glazer, A. N. Anal. Biochem. 252, 78–88, 1997.CrossRefGoogle Scholar
  23. 23.
    Hung, S.-C., Mathies, R. A., and Glazer, A. N. Anal. Biochem. 255, 32–38, 1998.CrossRefGoogle Scholar
  24. 24.
    Liu, S., Shi, Y., Ja, W. W., and Mathies, R. A. Anal. Chem. 71, 566–573, 1999.Google Scholar
  25. 25.
    Wang, Y., Hung, S. C., Linn, J. F., Steiner, G., Glazer, A. N., Sidransky, D., and Mathies, R. A. Electrophoresis 18, 1742–1749, 1997.CrossRefGoogle Scholar
  26. 26.
    Ju, J., Glazer, A. N., and Mathies, R. A. Nucleic Acids Res. 24, 1144–1148, 1996.CrossRefGoogle Scholar
  27. 27.
    Berti, L., Xie, J., Medintz, I. L., Glazer, A. N., Mathies, R. A. Anal. Biochem 292, 188–197, 2001.CrossRefGoogle Scholar
  28. 28.
    Berti, L., Medintz, I. L., Tom, J., Mathies, R. A. Bioconj. Chem. 12, 493–500, 2001.Google Scholar
  29. 29.
    Medintz, I. L., Berti, L., Emrich, C. A., Tom, J., Scherer, J. R., Mathies, R. A. Clin. Chem. 47, 1614–1621, 2001.Google Scholar
  30. 30.
    Rosenthal, A., and Charnock-Jones, D. Linear Amplification Sequencing with Dye Terminators, Totowa, NJ: Humana Press, 1993.Google Scholar
  31. 31.
    Reeve, M., and Fuller, C. Nature 376, 796–797, 1995.CrossRefGoogle Scholar
  32. 32.
    Bio Directory’ 99 from Amersham Pharmacia Biotech.Google Scholar
  33. 33.
    DYEnamic2122 ET terminators cycle sequencing premix kit from Amersham Pharmacia Biotech.Google Scholar
  34. 34.
    Charlesworth, B., Sniegowski, P., and Stephan, W. Nature 371, 215–220, 1994.CrossRefGoogle Scholar
  35. 35.
    Reed, P. W., Davies, J. L., Copeman, J. B., Bennett, S. T., Palmer, S. M., Pritchard, L. E., Gough, S. C. L., Kawaguchi, Y., Cordell, H. J., Balfour, K. M., Jenkins, S. C., Powell, E. E., Vignal, A., and Todd, J. A. Nature Genet. 7, 390–395, 1994.CrossRefGoogle Scholar
  36. 36.
    Oda, S., Oki, E., Maehara, Y., and Sugimachi, K. Nucleic Acids Res. 25, 3415–3420, 1997.CrossRefGoogle Scholar
  37. 37.
    Gyapay, G., Morissette, J., Vignal, A., Dib, C., Fizames, C., Millasseau, P., Marc, S., Bernardi, G., Lathrop, M., and Weissenbach, J. Nature Genet. 7, 246–339, 1994.Google Scholar
  38. 38.
    Dib, C., Faure, S., Fizames, C., Samson, D., Drouot, N, Vignal, A., Millasseau, P., Marc, S., Hazan, J., Seboun, E., Lathrop, M., Gyapay, G., Morissette, J., and Weissenbach, J. Nature 380, 152–154, 1996.CrossRefGoogle Scholar
  39. 39.
    Hammond, H. A., Jin, L., Zhong, Y., Caskey, C. T., and Chakraborty, R. Am. J. Hum. Genet. 55, 175–189, 1994.Google Scholar
  40. 40.
    Mansfield, E. S., Vainer, M., Harris, D. W., Gasparini, P., Estivill, X., Surrey. S., and Fortina, P. J. Chromatogr. A 781, 295–305, 1997.CrossRefGoogle Scholar
  41. 41.
    Wang, Y., Ju, J., Carpenter, B. A., Atherton, J. M., Sensabaugh, G. F., and Mathies, R. A. Anal. Chem. 67, 1197–1203, 1995.Google Scholar
  42. 42.
    Wang, Y., Wallin, J. M., Ju, J., Sensabaugh, G. F., and Mathies, R. A. Electrophoresis 17, 1485–1490, 1996.Google Scholar
  43. 43.
    Steiner, G., Schoenberg, M. P., Linn, J. F., Mao, L., and Sidransky, D. Nature Med. 3, 621–624, 1997.Google Scholar
  44. 44.
    Green, N. M. Methods Enzymol. 184, 51–67, 1980.Google Scholar
  45. 45.
    Hacia, J. G., Brody, L. C., Chee, M. S., Fodor, S. P. A., and Collins, F. S. Nature Genet. 14, 441–447, 1996.CrossRefGoogle Scholar
  46. 46.
    Hawkins, T. L., O’Connor-Morin, T., Roy, A., and Santillan, C. Nucleic Acids Res. 22, 4543–4544, 1994.Google Scholar
  47. 47.
    Holmberg, A., Fry, G., and Uhlen, M. Automatic preparation of DNA templates for sequencing on the ABI Catalyst robotic workstation, in Automated DNA Sequencing and Analysis, Adams, M. D., Fields, C., Venter, J. C. eds. San Diego, CA: Academic Press, 1994, pp. 139–145.Google Scholar
  48. 48.
    Ju, J., Yan, H., Zaro, M., Doctolero, M., Goralski, T., Konrad, K., Lachenmeier, E., and Cathcart, R. Ninth International Genome Sequencing and Analysis Conference, Hilton Head, SC, 1997. Meeting Abstract 223.Google Scholar
  49. 49.
    Xie, J., Mathies, R. A., and Glazer, A. N. DOE Human Genome Program Contractor-Grantee Wokshop VII, Oakland, CA, 1999. Meeting Abstract 19.Google Scholar
  50. 50.
    Chen, X., and Kwok, P. Y. Nucleic Acids Res. 25, 347–353, 1997.Google Scholar
  51. 51.
    Chen, X., Zehnbauer, B., Gnirke, A., and Kwok, P. K. Proc. Natl. Acad. Sci. USA 94, 10756–10761, 1997.Google Scholar
  52. 52.
    Chen, X., Livak, K., and Kwok, P. K. Genome Res. 8, 549–556, 1998.Google Scholar

Copyright information

© Kluwer Academic Publishers 2003

Authors and Affiliations

  • Jin Xie
    • 1
  • Su-Chun Hung
    • 1
  • Alexander N. Glazer
    • 1
  • Richard A. Mathies
    • 2
  1. 1.Department of Molecular and Cell BiologyUniversity of CaliforniaBerkeley
  2. 2.Department of ChemistryUniversity of CaliforniaBerkeley

Personalised recommendations