Skip to main content

Efficient PCR Production of Single-Stranded DNA Sequencing Templates

  • Protocol
  • 1328 Accesses

Part of the Methods in Molecular Biology™ book series (MIMB,volume 65)

Abstract

The acceptance of polymerase chain reaction (PCR) as a routine method in molecular biology has created a need for simple and robust approaches to DNA sequencing of the amplification products. In addition to its ease, direct sequencing of PCR products has the advantage that nucleotide misincorporation during amplification does not pose a problem, because only a small percentage of the DNA molecules may contain such random mutations. However, a large body of published protocols attests to the difficulties encountered in this endeavor. Double-stranded sequencing of the linear PCR products is notoriously unreliable because of rapid reannealing of the denatured DNA.

Keywords

  • Polymerase Chain Reaction
  • dNTP Concentration
  • dsDNA Fragment
  • Asymmetric Polymerase Chain Reaction
  • ssDNA Sequencing

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.

This is a preview of subscription content, access via your institution.

Buying options

Protocol
EUR   44.95
Price includes VAT (Finland)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
EUR   85.59
Price includes VAT (Finland)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
EUR   109.99
Price includes VAT (Finland)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Learn about institutional subscriptions

Springer Nature is developing a new tool to find and evaluate Protocols. Learn more

References

  1. Gyllensten, U. B. and Erlich, H. A. (1988) Generation of single-stranded DNA by the polymerase chain reaction and its application to direct sequencing of the HLA-DQA locus. Proc. Natl. Acad. Sci. USA 85, 7652–7656.

    CrossRef  PubMed  CAS  Google Scholar 

  2. Allard, M. W., Ellsworth, D. L., and Honeycutt, R. L. (1991) The production of single-stranded DNA suitable for sequencing using the polymerase chain reaction. BioTechniques 10, 24–26.

    PubMed  CAS  Google Scholar 

  3. Gibbs, R. A., Nguyen, P.-A., and Caskey, C. T. (1991) Direct DNA sequencing of complementary DNA amplified by the polymerase chain reaction, in Methods in Molecular Biology, vol. 9, Protocols in Human Molecular Genetics (Mathew, C., ed.), Humana, Totowa, NJ, pp. 9–20.

    Google Scholar 

  4. Kadowaki, T., Kadowaki, H., and Taylor, S. I. (1990) A nonsense mutation causing decreased levels of insulin receptor mRNA: detection by a simplified technique for direct sequencing of genomic DNA amplified by polymerase chain reaction. Proc. Natl. Acad. Sci. USA 87, 658–662.

    CrossRef  PubMed  CAS  Google Scholar 

  5. Kaltenboeck, B., Spatafora, J. W., Zhang, X., Kousoulas, K. G., Blackwell, M., and Storz, J. (1992) Efficient production of single-stranded DNA as long as 2 kb for sequencing of PCR-amplified DNA. BioTechniques 12, 164–171.

    PubMed  CAS  Google Scholar 

  6. Landweber, L. F. and Kreitman, M. (1993) Producing single-stranded DNA in polymerase chain reaction for direct genomic sequencing. Methods Enzymol. 218, 17–26.

    CrossRef  PubMed  CAS  Google Scholar 

  7. Medori, R., Tritschler, H.-J., and Gambetti, P. (1992) Production of single-stranded DNA for sequencing: an alternative approach. BioTechniques 12, 347–349.

    Google Scholar 

  8. Nichols, R. C. and Raben, N. (1994) Hints for direct sequencing of PCR-generated single-stranded DNA. BioTechniques 17, 412–414.

    PubMed  CAS  Google Scholar 

  9. Bangham, C. R. M. (1991) The polymerase chain reaction. Getting started, in Methods in Molecular Biology, vol. 9, Protocols in Human Molecular Genetics (Mathew, C., ed.), Humana, Totowa, NJ, pp. 1–9.

    Google Scholar 

  10. Innis, M. A. and Gelfand, D. H. (1990) Optimization of PCRs, in PCR Protocols A Guide to Methods and Applications (Innis, M. A., Gelfand, D. H., Sninsky, J. J., and White, T. J., eds.), Academic, New York, pp. 3–12.

    Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Editor information

Editors and Affiliations

Rights and permissions

Reprints and Permissions

Copyright information

© 1996 Humana Press Inc., Totowa, NJ

About this protocol

Cite this protocol

Kaltenboeck, B., Kousoulas, K.G. (1996). Efficient PCR Production of Single-Stranded DNA Sequencing Templates. In: Rapley, R. (eds) PCR Sequencing Protocols. Methods in Molecular Biology™, vol 65. Springer, Totowa, NJ. https://doi.org/10.1385/0-89603-344-9:149

Download citation

  • DOI: https://doi.org/10.1385/0-89603-344-9:149

  • Publisher Name: Springer, Totowa, NJ

  • Print ISBN: 978-0-89603-344-3

  • Online ISBN: 978-1-59259-551-8

  • eBook Packages: Springer Protocols