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DNA Sequencing by Capillary Array Electrophoresis

  • Protocol
Capillary Electrophoresis of Nucleic Acids

Part of the book series: Methods in Molecular Biology ((MIMB,volume 162))

Abstract

On May 9,1998, PE Biosystems announced that they would introduce a new instrument based on “breakthrough DNA analysis technology” (1). Over 700 orders for the new sequencer were received in the first 5 mo of production, which make this instrument one of the most successful new products in the history of analytical instrumentation. This new instrument is based on capillary array electrophoresis (CAE) with a sheath-flow cuvet detector. This detection technology provides nearly 100% duty cycle, where every capillary is monitored simultaneously without the need for a scanning detector system. By use of this instrument, the Drosophila melanogaster sequence will be completed in less than 5 mo (2), and the sequence of the human genome will be substantially complete by the time that this book is in print.

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References

  1. http://www.pecorporation.com/press/prc5448.html

  2. http://www.pecorporation.com/press/prccorp0728.html

  3. Sanger F., Nicklen S., and Coulson A. R. (1977) DNA sequencing with chain-terminating inhibitors. Proc. Nat. Acad. Sci. USA 74, 5463–5467

    Article  PubMed  CAS  Google Scholar 

  4. 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. (1986) Fluorescence detection in automated DNA sequence analysis. Nature 321, 674–679.

    Article  PubMed  CAS  Google Scholar 

  5. 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. (1987) A system for rapid DNA sequencing with fluorescent chain-terminating dideoxynucleotides. Science 238, 336–341.

    Article  PubMed  CAS  Google Scholar 

  6. Ansorge W., Sproat B. S., Stegemann J., and Schwager C. (1986) A non-radioactive automated method for DNA sequence determination. J. Biochem. Biophys. Meth. 13, 315–317.

    Article  PubMed  CAS  Google Scholar 

  7. http://www.nhgri.nih.gov/HGP

  8. http://www.nhgri.nih.gov:80/NEWS/Finish_sequencing_early/Intent_to_finish_sequencing_early.html

  9. Venter J. C., Adams M. D., Sutton G. G., Kerlavage A. R., Smith H. O., and Hunkapiller M. (1998) Shotgun sequencing of the human genome. Science 280, 1540–1542.

    Article  PubMed  CAS  Google Scholar 

  10. Viovy J.-L. and Duke T. (1993) DNA electrophoresis in polymer solutions: Ogston sieving, reptation and constraint release. Electrophoresis 14, 322–329.

    Article  PubMed  CAS  Google Scholar 

  11. Zagursky R. J. and McCormick R. M. (1990) DNA sequencing separations in capillary gels on a modified commercial DNA sequencing instrument. BioTechniques 9, 74–79.

    PubMed  CAS  Google Scholar 

  12. Dovichi N. J. and Zhang J. Z. (1995) Multiple capillary biochemical analyzer. US Patent 5,439,578; 8 August 1995.

    Google Scholar 

  13. Takahashi S. and Kambara H. (1996) DNA detector and DNA detection method. US Patent 5,529,679; 25 June 1996.

    Google Scholar 

  14. Steinkamp J. A. (1984) Flow cytometry. Rev. Sci. Instrum. 55, 1375.

    Article  Google Scholar 

  15. Dovichi N. J., Martin J. C., Jett J. H., Trkula M., and Keller R. A. (1984) Laser-induced fluorescence of flowing samples as an approach to single-molecule detection in liquids. Anal. Chem. 56, 348–354.

    Article  PubMed  CAS  Google Scholar 

  16. Dovichi N. J., Martin J. C., Jett J. H., and Keller R. A. (1983) Attogram detection limit for aqueous dye samples by laser-induced fluorescence. Science 219, 845–847.

    Article  PubMed  CAS  Google Scholar 

  17. Hguyen D. C., Keller R. A., Jett J. A., and Martin J. C. (1987) Detection of single molecules of phycoerythrin in hydrodynamically focused flows by laser-induced fluorescence. Anal. Chem. 59, 2158–2161.

    Article  Google Scholar 

  18. Cheng Y. F. and Dovichi N. J. (1988) Subattomole amino acid analysis by capillary zone electrophoresis and laser-induced fluorescence. Science 242, 562–564.

    Article  PubMed  CAS  Google Scholar 

  19. Cheng Y. F., Wu S., Chen D. Y., and Dovichi N. J. (1990) Interaction of capillary zone electrophoresis with a sheath flow cuvette detector. Anal. Chem. 62, 496–503.

    Article  CAS  Google Scholar 

  20. Wu S. and Dovichi N. J. (1989) High-sensitivity fluorescence detector for fluorescein isothiocyanate derivatives of amino acids separated by capillary zone electrophoresis. J. Chromatogr. 480, 141–155.

    Article  PubMed  CAS  Google Scholar 

  21. Zhao J. Y., Chen D. Y., and Dovichi N. J. (1992) Low-cost laser-induced fluorescence detector for micellar capillary zone electrophoresis: detection at the zeptomol level of tetramethylrhodaminethiocarbamyl amino acid derivatives. J. Chromatogr. 608, 117–120.

    Article  CAS  Google Scholar 

  22. Zhao J. Y., Waldron K. C., Miller J., Zhang J. Z., Harke H. R., and Dovichi N. J. (1992) Attachment of a single fluorescent label to peptides for determination by capillary zone electrophoresis. J. Chromatogr. 608, 239–242.

    Article  PubMed  CAS  Google Scholar 

  23. Pinto D. M., Arriaga E. A., Craig D., Angelova J., Sharma N., Ahmadzadeh H., Dovichi N. J., and Boulet C. A. (1997) Picomolar assay of native proteins by capillary electrophoresis-precolumn labeling, sub-micellar separation, and laser induced fluorescence detection. Anal. Chem. 69, 3015–3021.

    Article  CAS  Google Scholar 

  24. Zhang Y., Arriaga E., Diedrich P., Hindsgaul O., and Dovichi N. J. (1995) Nanomolar determination of aminated sugars by capillary electrophoresis. J. Chromatogr. 716, 221–229.

    Article  CAS  Google Scholar 

  25. Le X.-C., Scaman C., Zhang Y., Zhang J. Z., Dovichi N. J., Hindsgaul O., and Palcic M. M. (1995) Analysis by capillary electrophoresis-laser-induced fluorescence detection of oligosaccharides produced from enzyme reactions. J. Chromatogr. 716, 215–220.

    Article  CAS  Google Scholar 

  26. Figeys D., Arriaga E., Renborg A., and Dovichi N. J. (1994) Use of the fluorescent intercalating dyes POPO-3, YOYO-3 and YOYO-1 for ultrasensitive detection of double stranded DNA separated by capillary electrophoresis with hydroxypropylmethyl cellulose and non-cross-linked polyacrylamide. J. Chromatogr. 669, 205–216.

    Article  CAS  Google Scholar 

  27. Chen D. Y. and Dovichi N. J. (1996) Single-molecule detection in capillary electrophoresis: molecular shot noise as a fundamental limit to chemical analysis. Anal. Chem. 68, 690–696.

    Article  CAS  Google Scholar 

  28. Swerdlow H., Wu S., Harke H., and Dovichi N. J. (1990) Capillary gel electrophoresis for DNA sequencing—laser-induced fluorescence detection with the sheath flow cuvette. J. Chromatogr. 516, 61–67.

    Article  PubMed  CAS  Google Scholar 

  29. Swerdlow H., Zhang J. Z., Chen D. Y., Harke H. R., Grey R., Wu S., Fuller C., and Dovichi N. J. (1991) Three DNA sequencing methods using capillary gel electrophoresis and laser-induced fluorescence. Anal. Chem. 63, 2835–2841.

    Article  PubMed  CAS  Google Scholar 

  30. Zhang J. Z., Fang Y., Hou J. Y., Ren H. J., Jiang R., Roos P., and Dovichi N. J. (1995) Use of non-cross-linked polyacrylamide for four-color DNA sequencing by capillary electrophoresis separation of fragments up to 640 bases in length in two hours. Anal. Chem. 67, 4589–4593.

    Article  PubMed  CAS  Google Scholar 

  31. Yan J. Y., Best N., Zhang J. Z., Ren H. J., Jiang R., Hou J., and Dovichi N. J. (1996) The limiting mobility of DNA sequencing fragments for both cross-linked and noncross-linked polymers in capillary electrophoresis: DNA sequencing at 1200 V cm−1. Electrophoresis 17, 1037–1045.

    Article  PubMed  CAS  Google Scholar 

  32. Zhang J. Z. (1994) DNA sequencing by single and multiple capillary gel electrophoresis. PhD thesis, Department of Chemistry, University of Alberta.

    Google Scholar 

  33. Kambara H. and Takahashi S. (1993) Multiple-sheath flow capillary array DNA analyzer. Nature 361, 565–566.

    Article  PubMed  CAS  Google Scholar 

  34. Kamahori M. and Kambara H. (2001) Capillary array electrophoresis analyser, in Capillary Electrophoresis of Nucleic Acids, Vol. 2 (Mitchelson K. R. and Cheng J., eds.), Humana Press Totowa, NJ, pp. 271–287.

    Chapter  Google Scholar 

  35. Anonymous comment. Science 1998, 280, 995.

    Google Scholar 

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Dovichi, N.J., Zhang, J. (2001). DNA Sequencing by Capillary Array Electrophoresis. In: Mitchelson, K.R., Cheng, J. (eds) Capillary Electrophoresis of Nucleic Acids. Methods in Molecular Biology, vol 162. Humana Press. https://doi.org/10.1385/1-59259-055-1:85

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  • DOI: https://doi.org/10.1385/1-59259-055-1:85

  • Publisher Name: Humana Press

  • Print ISBN: 978-0-89603-779-3

  • Online ISBN: 978-1-59259-055-1

  • eBook Packages: Springer Protocols

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