Abstract
DNA analysis methods have been greatly developed in the past 10 yr with the progress of the Human Genome Project (1). In addition to rapid and high-throughput DNA sequencers (2), various reagents (3), and sample preparation methods (4-5)have been developed as well. In order to suit for large scale DNA sequencing, the following methods have been proposed and widely applied in a sequencing facility: shotgun method (6), nested deletion method (7), primer walking method (8), and modular primer method (9)
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References
Collins, F. S., Patrinos, A., Jordan, E., Chakravarti, A., Gestrand, R., and Walters, L. (1998) New goals for the US human genome project: 1998-2003. Science 282, 682–689.
Kheterpal, I. and Mathies, R A. (1999) Capillary array electrophoresis DNA sequencing. Anal. Chem. 71, 31A–37A.
Tabor, S. and Richardson, C. C. (1995) A single residue in DNA polymerase of the Eschericia coli DNA polymerase I family is critical for distinguishing between deoxyand dideoxyribonucleotides. Proc. Natl. Acad. Sci. USA 92, 6339–6343.
Innis, M. A., Myambo, K. B., Gelfand. D. H., and Brow, M. A. D. (1988) DNA sequencing with Thermus aquatics DNA polymerase and direct sequencing of polymerase chain reaction-amplified DNA. Proc. Natl. Acad. Sci. USA 85, 9436–9440.
Deininger, P. L. (1983) Random subcloning of sonicated DNA: application to shotgun DNA sequence analysis. Anal. Biochem. 129, 216–223.
Favello, A., Hillier, L., and Wilson, R. K. (1995) Genomic DNA sequencing methods. Methods Cell Biol. 48, 551–569.
Hattori, M., Tsukahara, F., Furuhata, Y., Tanahashi, H., Hirose, M., Saito, M., Tsukuni, S., and Sakaki, Y. (1997) A novel method for making nested deletions and its application for sequencing of a 300-kb region of human APP locus. Nucleic Acids Res. 25, 1802–1808.
Kaiser, R. J., Makellar, S. L., Vinayak, R. S., Sanders, J. Z., Saavedra, R. A., and Hood, L. E. (1989) Specific-primer-directed DNA sequencing using automated fluorescence detection. Nucleic Acids Res. 17, 6087–6102.
Kaczorowski, T. and Szybalski, W. (1998) Genomic DNA sequencing by SPEL-6 primer walking using hexamer ligation. Gene 26, 83–91.
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.
Kambara, H. (1998) Recent progress in fluorescent DNA analyzers and methods. Curr. Topics Anal. Chem. 1, 21–36.
Crighton, S., Huang, M. M., Cai, H., Arnheim, N., and Goodman, M. F. (1992) Base mispair extension kinetics. Binding of avian myeloblastosis reverse transcriptase to matched and mismatched base pair termini. J. Biol. Chem. 267, 2633–2639.
Furuyama, H., Okano, K., and Kambara, H. (1994) DNA sequencing directly from a mixture using terminal-base-selective primers. DNA Res. 1, 231–237.
Okano, K. and Kambara, H. (1996) Fragment walking for long DNA sequencing by using a library as small as 16 primers. Gene 176, 231–235.
Matsunaga, H., Kohara, Y., Okano, K., and Kambara, H. (1996) Selecting and amplifying one fragment from a DNA fragment mixture by polymerase chain reaction with a pair of selective primers. Electrophoresis 17, 1833–1840.
Vos, P., Hogers, R., Bleeker, M., Reijans, M., van de Lee, T., Hornes, M., Frijters, A., Pot, J., Peleman, J., Kuiper, M., and Zabeau, M. (1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res. 23, 4407–4414.
Okano, K., Uematsu, C., Matsunaga, H., and Kambara, H. (1998) Characteristics of selective polymerase chain reaction (PCR) using two-base anchored primers and improvement of its specificity. Electrophoresis 19, 3071–3078.
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Li, T., Okano, K., Kambara, H. (2001). Selective Primer Sequencing from a DNA Mixture by Capillary Electrophoresis. In: Mitchelson, K.R., Cheng, J. (eds) Capillary Electrophoresis of Nucleic Acids. Methods in Molecular Biology™, vol 163. Humana Press. https://doi.org/10.1385/1-59259-116-7:317
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DOI: https://doi.org/10.1385/1-59259-116-7:317
Publisher Name: Humana Press
Print ISBN: 978-0-89603-765-6
Online ISBN: 978-1-59259-116-9
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