Abstract
The polymerase chain reaction (PCR) has revolutionized the isolation and analysis of nucleic acid fragments from a wide variety of sources. PCR-based methods for nucleic acid detection and fingerprinting have become vital to modern molecular genetics, whether for the analysis of populations of organisms to determine population structure of an ecosystem, sampling a set of DNA sequences to infer evolutionary history, sampling genetic loci to build a map, or sampling differentially expressed genes to identify phenotypic markers. PCR can be used to generate high resolution genetic maps of human and comparative genomes. Compared with Southern blot analysis, which detects restriction fragment length polymorphisms (RFLPs) and hypervariable minisatellite loci, PCR is faster, less labor-intensive, less expensive, and requires relatively small amounts of DNA. Additionally, PCR may be a more practical approach for large-scale mapping projects.
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Williams, J. G., Kubelik, A. R., Livak, K. J., Rafalski, J. A., and Tingey, S. V. (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res. 18, 6531–6535.
Caetano-Anolles, G., Bassam, B. J., and Gresshoff, P. M. (1991) DNA amplification fingerprinting using very short arbitrary oligonucleotide primers. Biotechnology (NY) 9, 553–557.
Caetano-Anolles, G., Bassam, B. J., and Gresshoff, P. M. (1992) DNA fingerprinting: MAAPing out a RAPD redefinition? Bio/Technology 19, 937.
Welsh, J. and McClelland, M. (1990) Fingerprinting genomes using PCR with arbitrary primers. Nucleic Acids Res. 18, 7213–7218.
Welsh, J. and McClelland, M. (1991) Genomic fingerprinting using arbitrarily primed PCR and a matrix of pairwise combinations of primers. Nucleic Acids Res. 19, 5275–5279.
Welsh, J., Pretzman, C., Postic, D., Saint Girons, I., Baranton, G., and McClelland, M. (1992) Genomic fingerprinting by arbitrarily primed polymerase chain reaction resolves Borrelia burgdorferi into three distinct phyletic groups. Intl. J. Syst. Bacteriol. 42, 370–373.
Preus, H. R., Haraszthy, V. I., Zambon, J. J., and Genco, R. J. (1993) Differentiation of strains of Actinobacillus actinomycetemcomitans by arbitrarily primed polymerase chain reaction. J. Clin. Microbiol. 31, 2773–2776.
Peinado, M. A., Malkhosyan, S., Velazquez, A., and Perucho, M. (1992) Isolation and characterisation of allelic losses and gains in colorectal tumors by arbitrarily primed polymerase chain reaction. Proc. Natl. Acad. Sci. USA 89, 10,065–10,069.
Ionov, Y., Peinado, M. A., Malkhosyan, S., Shibata, D., and Perucho, M. (1993) Ubiquitous somatic mutations in simple repeated sequences reveal a new mechanism for colonic carcinogenesis. Nature 10, 558–563.
Roninson, I. B., Chin, J. E., Choi, K. G., Gros, P., Housman, D. E., Fojo, A., et al. (1986) Isolation of human mdr DNA sequences amplified in multidrug-resistant KB carcinoma cells. Proc. Natl. Acad. Sci. USA 83, 4538–4542.
Wesley, C. S., Ben, M., Kreitman, M., Hagag, N., and Eanes, W. F. (1990) Cloning regions of the Drosophila genome by microdissection of polytene chromosome DNA and PCR with nonspecific primer. Nucleic Acids Res. 18, 599–603.
Welsh, J., Chada, K., Dalal, S. S., Cheng, R., Ralph, D., and McClelland, M. (1992) Arbitrarily primed PCR fingerprinting of RNA. Nucleic Acids Res. 20, 4965–4970.
Nelson, D. L., Ledbetter, S. A., Corbo, L., Victoria, M. F., Ramirez-Solis, R., Webster, T. D., et al. (1989) Alu polymerase chain reaction: a method for rapid isolation of human-specific sequences from complex DNA sources. Proc. Natl. Acad. Sci. USA 86, 6686–6690.
McKie, A. B., Iwamura, T., Leung, H. Y., Hollingsworth, M. A., and Lemoine, N. R. (1997) Alu-polymerase chain reaction genomic fingerprinting technique identifies multiple genetic loci associated with pancreatic tumourigenesis. Genes Chrom. Cancer 18, 30–41.
Nystrom-Lahti, M., Kristo, P., Nicolaides, N. C., Chang, S. Y., Aaltonen, L.A., Moisio, A. L., et al. (1995) Founding mutations and Alu-mediated recombination in hereditary colon cancer. Nat. Med. 1, 1203–1206.
Tycko, B., Smith, S. D., and Sklar, J. (1991) Chromosomal translocations joining LCK and TCRB loci in human T cell leukemia. J. Exp. Med. 174, 867–873.
Chissoe, S. L., Bodenteich, A., Wang, Y. F., Wang, Y. P., Burian, D., Clifton, S. W., et al. (1995) Sequence and analysis of the human ABL gene, the BCR gene, and regions involved in the Philadelphia. Genomics 27, 67–82.
Skowronski, J., Fanning, T. G., and Singer, M. F. (1988) Unit-length line-1 transcripts in human teratocarcinoma cells. Mol. Cell. Biol. 8, 1385–1397.
Jurka, J. (1990) Novel families of interspersed repetitive elements from the human genome. Nucleic Acids Res. 18, 137–141.
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Sirivatanauksorn, V., Sirivatanauksorn, Y., McKie, A.B., Lemoine, N.R. (2002). Use of DNA Fingerprinting to Detect Genetic Rearrangements in Human Cancer. In: Boultwood, J., Fidler, C. (eds) Molecular Analysis of Cancer. Methods in Molecular Medicine, vol 68. Humana Press. https://doi.org/10.1385/1-59259-135-3:107
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DOI: https://doi.org/10.1385/1-59259-135-3:107
Publisher Name: Humana Press
Print ISBN: 978-0-89603-622-2
Online ISBN: 978-1-59259-135-0
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