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New murine polymorphisms detected by random amplified polymorphic DNA (RAPD) PCR and mapped by use of recombinant inbred strains

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Abstract

Oligonucleotide primers of random sequence that were 12 bases in length, 58% in GC content, and lacking internal palindromes were designed. By random amplified polymorphic DNA (RAPD) PCR, these primers were used to survey for DNA variations between the progenitors of the mouse AXB and BXA recombinant inbred sets (A/J and C57BL/6J). We identified 17 DNA variants detected by 10 primers. Map positions for these variants were determined by comparing their strain distribution patterns in the AXB, BXA recombinant inbred sets with strain distribution patterns of previously published loci. When necessary, BXD and NXSM recombinant inbred sets were also used. These 17 new loci mapped to 12 chromosomes. The 10 primers were also used to survey 20 inbred mouse strains including the progenitors of other recombinant inbred sets and four mouse strains recently inbred from the wild (CAST/Ei, MOLF/Ei, PERA/Ei, and SPRET/Ei).

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References

  • Ausubel, F.M., Brent, R., Kingston, R.E., Moore, D.D., Seidman, J.G., Smith, J.A., Struhl, K. eds. (1991). Current Protocols in Molecular Biology. New York: John Wiley & Sons).

    Google Scholar 

  • Blatt, C., Harper, M.E., Franchini, G., Nesbitt, M.N., Simon, M.I. (1984). Chromosomal mapping of murine c-fes and c-src genes. Mol. Cell. Biol. 4, 978–981.

    Google Scholar 

  • Blatt, C., Eversole-Cire, P., Cohn, V.H., Zollman, S., Fournier, R.E.K., Mohandas, L.T., Nesbitt, M., Lugo, T., Jones, D.T., Reed, R.R., Weiner, L.P., Sparkes, R.S., Simon, M.I. (1988a). Chromosomal localization of genes encoding guanine nucleotide-binding protein subunits in mouse and human. Proc. Natl. Acad. Sci. USA 85, 7642–7646.

    Google Scholar 

  • Blatt, C., Saxe, D., Marzluff, W.F., Lobo, S., Nesbitt, M.N., Simon, M.I. (1988b). Mapping and gene order of U1 small nuclear RNA, endogenous viral env sequence, amylase, and alcohol dehydrogenase-3 on mouse chromosome 3. Somat. Cell Mol. Genet. 14, 133–142.

    Google Scholar 

  • Dietrich, W., Katz, H., Lincoln, S.E., Shin, H.-S., Friedman, J., Dracopoli, N.C., Lander, E.S. (1992). A genetic map of the mouse suitable for typing intraspecific crosses. Genetics 131, 423–447.

    Google Scholar 

  • Eicher, E.M., Lee, B.K. (1990). The NXSM recombinant inbred strains of mice: genetic profile for 58 loci including the Mtv proviral loci. Genetics 125, 431–446.

    Google Scholar 

  • Frankel, W.N., Stoye, J.P., Taylor, B.A., Coffin, J.M. (1989a). Genetic analysis of endogenous xenotropic murine leukemia viruses: association with two common mouse mutations and the viral restriction locus Fv-1. J. Virol. 63, 1763–1774.

    Google Scholar 

  • Frankel, W.N., Stoye, J.P., Taylor, B.A., Coffin, J.M. (1989b). Genetic identification of endogenous polytropic proviruses by using recombinant inbred mice. J. Virol. 63, 3810–3821.

    Google Scholar 

  • Frankel, W.N., Lee, B.K., Stoye, J.P., Coffin, J.M., Eicher, E.M. (1992). Characterization of the endogenous nonecotropic murine leukemia viruses of NZB/BINJ and SM/J inbred strains. Mamm. Genome 2, 110–122.

    Google Scholar 

  • Gora-Maslak, G., Smith, D.L., Plomin, R., McClearn, G.E. (1991). Prm-1 and DXWas17 RFLP polymorphisms identify novel SDPs in the BXD strains. Mouse Genome 89, 852.

    Google Scholar 

  • Lund, E., Nesbitt, M.N. (1988). The embryonic and adult mouse U1 snRNA genes map to different chromosomal loci. Somat. Cell Mol. Genet. 14, 143–148.

    Google Scholar 

  • Manly, K.F., Elliott, R.W. (1991). RI Manager, a microcomputer program for analysis of data from recombinant inbred strains. Mamm. Genome 1, 123–126.

    Google Scholar 

  • Marshall, J.D., Mu, J.-L., Cheah, Y.-C., Nesbitt, M.N., Frankel, W.N., Paigen, B. (1992). The AXB and BXA set of recombinant inbred mouse strains. Mamm. Genome 3, 669–680.

    Google Scholar 

  • Mu, J.-L., Cheah, Y.-C., Paigen, B. (1992). Strain distribution pattern of 25 simple sequence length polymorphisms in the AXB and BXA recombinant inbred strains. Mamm. Genome 3, 705–708.

    Google Scholar 

  • Mu, J.-L., Naggert, J.K., Nishina, P.M., Cheah, Y.-C., Paigen, B. (1993). Strain distribution pattern in AXB and BXA recombinant inbred strains for loci on murine chromosomes 10, 13, 17, and 18. Mamm. Genome 4, 148–152.

    Google Scholar 

  • Nadeau, J.H., Bedigian, H.G., Bouchard, G., Denial, T., Kosowsky, M., Norberg, R., Pugh, S., Sargeant, E., Turner, R., Paigen, B. (1992). Multilocus markers for mouse genome analysis: PCR amplification based on single primers of arbitrary nucleotide sequence. Mamm. Genome 3, 55–64.

    Google Scholar 

  • Nesbitt, M.N., Skamene, E. (1984). Recombinant inbred mouse strains derived from A/J and C57BL/6J: a tool for the study of genetic mechanisms in host resistance to infection and malignancy. J. Leukoc. Biol. 36, 357–364.

    Google Scholar 

  • Nesbitt, M., Pugh, S.L., Paigen, B. (1990). Strain distribution pattern of thirteen genetic loci in the AXB and BXA recombinant inbred set. Mouse Genome 88, 113.

    Google Scholar 

  • Neumann, P.E. (1990). Two locus linkage analysis using recombinant inbred strains and Bayes' theorem. Genetics 126, 277–284.

    Google Scholar 

  • Neumann, P.E. (1991). Three-locus linkage analysis using recombinant inbred strains and Bayes' theorem. Genetics 128, 631–638.

    Google Scholar 

  • Owen, F.L., Taylor, B.P., Zweidler, A., Seidman, J.G. (1986). The murine gamma-chain of the T cell receptor is closely linked to a spermatocyte specific histone gene and the beige coat color locus on chromosome 13. J. Immunol. 137, 1044–1046.

    Google Scholar 

  • Reiter, R.S., Williams, J.G.K., Feldmann, K.A., Rafalski, J.A., Tingey, S.V., Scolnik, P.A. (1992). Global and local genome mapping in Arabidopsis thaliana by using recombinant inbred lines and random amplified polymorphic DNAs. Proc. Natl. Acad. Sci. USA 89, 1477–1481.

    Google Scholar 

  • Ryan, J., Barker, P.E., Nesbitt, M.N., Ruddle, F.H. (1987). KRAS2 as a genetic marker for lung tumor susceptibility in inbred mice. J. Natl. Cancer Inst. 79, 1351–1357.

    Google Scholar 

  • Schurr, E., Skamene, E., Forget, A., Gros, P. (1989). Linkage analysis of the Bcg gene on mouse chromosome 1. J. Immunol. 142, 4507–4513.

    Google Scholar 

  • Seldin, M.F., Morse, H.C., LeBoeuf, R.C., Steinberg, A.D. (1988). Establishment of a molecular genetic map of distal mouse chromosome 1: Further definition of a conserved linkage group syntenic with human chromosome 1q. Genomics 2, 48–56.

    Google Scholar 

  • Serikawa, T., Montagutelli, X., Simon-Chazottes, D., Guénet, J.-L. (1992). Polymorphisms revealed by PCR with single, short-sized, arbitrary primers are reliable markers for mouse and rat gene mapping. Mamm. Genome 3, 65–72.

    Google Scholar 

  • Silver, J. (1985). Confidence limits for estimates of gene linkage based on analysis using recombinant inbred strains. J. Hered. 76, 436–440.

    Google Scholar 

  • Taylor, B.A., Rowe, L. (1984). Genes for serum amyloid A proteins map to Chromosome 7 in the mouse. Mol. Gen. Genet. 195, 491–499.

    Google Scholar 

  • Welsh, J., McClelland, M. (1990). Fingerprinting genomes using PCR with arbitrary primers. Nucleic Acids Res. 18, 7213–7218.

    Google Scholar 

  • Williams, J.G.K., Kubelik, A.R., Livak, K.J., Rafalski, J.A., Tingey, S.V. (1990). DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res. 18, 6531–6535.

    Google Scholar 

  • Woodward, S.R., Sudweeks, J., Teuscher, C. (1992). Random sequence oligonucleotide primers detect polymorphic DNA products which segregate in inbred strains of mice. Mamm. Genome 3, 73–78.

    Google Scholar 

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Authors and Affiliations

  1. Department of Molecular and Human Genetics, Baylor College of Medicine, 77030, Houston, Texas, USA

    Y. -C. Cheah

  2. The Jackson Laboratory, 600 Main Street, 04609-1500, Bar Harbor, Maine, USA

    J. H. Nadeau, S. Pugh & B. Paigen

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  1. Y. -C. Cheah
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  2. J. H. Nadeau
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  3. S. Pugh
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  4. B. Paigen
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Cheah, Y.C., Nadeau, J.H., Pugh, S. et al. New murine polymorphisms detected by random amplified polymorphic DNA (RAPD) PCR and mapped by use of recombinant inbred strains. Mammalian Genome 5, 762–767 (1994). https://doi.org/10.1007/BF00292009

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  • DOI: https://doi.org/10.1007/BF00292009

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