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Rolling Circle Amplification for Sequencing Templates

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Bacterial Artificial Chromosomes

Part of the book series: Methods in Molecular Biology™ ((MIMB,volume 255))

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Abstract

Robust and reproducible isolation of high-quality templates is a requirement for successful DNA sequencing. To date, approaches for template generation have been limited to purification of biologically propagated M13 or plasmid-based templates, or in vitro amplification of such templates by polymerase chain reaction (PCR). In this chapter, we describe a protocol for a new approach to template generation: rolling circle amplification (RCA). We have found that templates produced through RCA yield more consistent and higher-quality sequence than identical templates generated from plasmid-prep methods. The protocol is simple, amenable to high throughput, and currently in use at the DOE Joint Genome Institute (Walnut Creek, CA) for the daily production of 30,000 sequencing templates.

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References

  1. Gilbert, W and Dressler, D. (1968) DNA replication: the rolling circle model. Cold Spring Harb. Symp. Quant. Biol. 33, 473–484.

    PubMed  CAS  Google Scholar 

  2. Dressler, D. (1970) The rolling circle for phiX DNA replication. II. Synthesis of single-stranded circles. Proc. Natl. Acad. Sci. USA 67, 1934–1942.

    Article  PubMed  CAS  Google Scholar 

  3. Schroder, C. H., Erben, E., and Kaerner, H. C. (1973) A rolling circle model of the in vivo replication of bacteriophagephiX174 replicative form DNA: different fate of two types of progeny replicative form. J. Mol. Biol. 79, 599–613.

    Article  PubMed  CAS  Google Scholar 

  4. Doermann, A. H. (1973) T4 and the rolling circle model of replication. Annu. Rev. Genet. 7, 325–341.

    Article  PubMed  CAS  Google Scholar 

  5. Kornberg, A. and Baker, T. A. (1992) DNA Replication. W. H. Freeman and Company, San Francisco.

    Google Scholar 

  6. Zhou, Y., Calciano, M., Hamann, S., Leamon, J. H., Strugnell, T., Christian, M. W., and Lizardi, P. M. (2001) In situ detection f messenger RNA using digoxigenin-labeled oligonucleotides and rolling circle amplification. Exp. Mol. Pathol. 70, 281–288.

    Article  PubMed  CAS  Google Scholar 

  7. Zhong, X. B., Lizardi, P. M., Huang, X. H., Bray-Ward, P. L., and Ward, D. C. (2001) Visualization of oligonuclotide probes and point mutations in interphase nuclei and DNA fibers using rolling circle DNA amplification. Proc. Natl. Acad. Sci. USA 98, 3940–3945.

    Article  PubMed  CAS  Google Scholar 

  8. Schweitzer, B., Wiltshire, S., Lambert, S., O’Malley, S., Kukanskis, K., Zhu, Z., Kingsmore, S. F, Lizardi, P. M., and Ward, D. C. (2000) Inaugural article: immunoassays with rolling circle DNA amplification: a versatile platform for ultrasensitive antigen detection. Proc. Natl. Acad. Sci. USA 97, 10,113–10,119.

    Article  PubMed  CAS  Google Scholar 

  9. Schweitzer, B. and Kingsmore, S. (2001) Combining nucleic acid amplification and detection. Curr. Opin. Biotechnol. 12, 21–27.

    Article  PubMed  CAS  Google Scholar 

  10. Dean, F B., Nelson, J. R., Giesler, T. L., and Lasken, R. S. (2001) Rapid amplification of plasmid and phage DNA using phi29 DNA polymerase and multiply-primed rollling circle amplification. Genome Res. 11, 1095–1099.

    Article  PubMed  CAS  Google Scholar 

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© 2004 Humana Press Inc., Totowa, NJ

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Predki, P.F. et al. (2004). Rolling Circle Amplification for Sequencing Templates. In: Zhao, S., Stodolsky, M. (eds) Bacterial Artificial Chromosomes. Methods in Molecular Biology™, vol 255. Humana Press. https://doi.org/10.1385/1-59259-752-1:189

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  • DOI: https://doi.org/10.1385/1-59259-752-1:189

  • Publisher Name: Humana Press

  • Print ISBN: 978-0-89603-988-9

  • Online ISBN: 978-1-59259-752-9

  • eBook Packages: Springer Protocols

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