Abstract
The modifications of hybridization patterns were studied when Southern blots, carrying stallions DNA samples, were probed with eight synthetic tandem repeats (STRs), related by sequence variations in the basic unit. Because STRs preferentially crosshybridize with genomic VNTRs, they usually give patterns looking more like DNA fingerprints, but we found that even small modifications in the STR monomer could cause major changes in the hybridization profiles and could induce a shift of fingerprint pattern towards the detection of only one or two loci. This enables the use of STRs as direct genetic markers for linkage analysis, without cloning of the corresponding DNA fragment. Moreover, the set of STR variants can suggest consensus sequences allowing some prediction of the banding pattern.
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Armour, J.A.L., Vergnaud, G., Crosier, M., and Jeffreys, A.J.: Isolation of human minisatellite loci using synthetic tandem repeats: direct comparison with cloned DNA fingerprinting probes. Submitted, 1992.
Bell, G.I., Serby, M.J., and Rutter, W.J.: The highly polymorphic region near the human insulin gene is composed of simple tandemly repeating sequences. Nature 295: 31–35, 1982.
Georges, M., Gunawardana, A., Threadgill, D.W., Lathrop, M., Olsaker, I., Mishra, A., Sargeant, L., Schoeberlein, A., Steele, M., Terry, C., Threadgill, D.S., Zhao, X., Holm, T., Fries, R., and Womack, J.: Characterization of a set of variable number of tandem repeat markers conserved in bovidae. Genomics 6: 461–474, 1991.
Gill, P., Jeffreys, A.L., and Werrett, D.J.: Forensic application of DNA “fingerprints.” Nature 318: 577–579, 1985.
Jeanpierre, M.: A rapid method for the purification of DNA from blood. Nucleic Acids Res 15: 9611, 1987.
Jeffreys, A.J. and Morton, D.B.: DNA fingerprints of dogs and cats. Anim Genet 18: 1–15, 1987.
Jeffreys, A.J., Wilson, V., and Thein, S.L.: Hypervariable “minisatellite” regions in human DNA. Nature 314: 67–73, 1985a.
Jeffreys, A.J., Wilson, V., and Thein, S.L.: Individual-specific “fingerprints” of human DNA. Nature 316: 76–79, 1985b.
Jeffreys, A.J., Wilson, V., Thein, S.L., Weatherall, D.J., and Ponder, B.A.J.: DNA “fingerprints” and segregation analysis of multiple markers in human pedigrees. Am J Hum Genet 39: 11–24, 1986.
Julier, C., De Gouyon, B., Georges, M., Guenet, J.L., Nakamura, Y., Avner, P., and Lathrop, M.: Minisatellite linkage maps in the mouse by cross-hybridization with human probes containing tandem repeats. Proc Natl Acad Sci USA 87: 4585–4589, 1990.
Lauthier, V., Mariat, D., Zoroastro, M., and Vergnaud, G.: Five synthetic probes detecting new polymorphic loci. Nucleic Acids Res 19: 4013–4015, 1991.
Mariat, D. and Vergnaud, G.: Detection of polymorphic loci in complex genomes with synthetic tandem repeats. Genomics 12: 454–458, 1992.
Nakamura, Y., Leppert, M., O'Connell, P., Wolff, R., Holm, T., Culver, M., Martin, C., Fujimoto, E., Hoff, M., Kumlin, E., and White, R.: Variable number of tandem repeat (VNTR) markers for human gene mapping. Science 235: 1616–1622, 1987.
Southern, E.M.: Detection of specific sequences among DNA fragments separated by gel electrophoresis. J Mol Biol 98: 503, 1975.
Vergnaud, G.: Polymers of random short oligonucleotides detect polymorphic loci in the human genome. Nucleic Acids Res 17: 7623–7630, 1989.
Vergnaud, G., Mariat, D., Apiou, F., Aurias, A., Lathrop, M., and Lauthier, V.: The use of synthetic tandem repeats to isolate new VNTR loci: cloning of a human hypermutable sequence. Genomics 11: 135–144, 1991a.
Vergnaud, G., Mariat, D., Zoroastro, M., and Lauthier, V.: Detection of single and multiple polymorphic loci by synthetic tandem repeats of short oligonucleotides. Electrophoresis 12: 134–140, 1991b.
Wyman, A.R. and White, R.: A highly polymorphic locus in human DNA. Proc Natl Acad Sci USA 77: 6754–6758, 1980.
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Mariat, D., Guérin, G., Bertaud, M. et al. Modulation of polymorphic loci detection with synthetic tandem repeat variants. Mammalian Genome 3, 546–549 (1992). https://doi.org/10.1007/BF00350619
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DOI: https://doi.org/10.1007/BF00350619