Vector-hexamer PCR isolation of all insert ends from a YAC contig of the mouse Igh locus

Genome Research

Volumn 8, Issue 6, 1998, Pages 673-681

  Herring, Christopher D ^a   Chevillard, Christophe ^a   Johnston, Sean L ^b   Wettstein, Peter J ^b   Riblet, Roy ^a  

^a University of California San Diego Medical Biology Institute   (United States)

^b MAYO CLINIC   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CONTIG; IMMUNOGLOBULIN HEAVY CHAIN;

ARTICLE; CONTROLLED STUDY; DNA LIBRARY; EXPRESSION VECTOR; GENE AMPLIFICATION; GENE CONSTRUCT; GENE LOCUS; MOUSE; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SOUTHERN BLOTTING; TECHNIQUE; YEAST ARTIFICIAL CHROMOSOME;

ENICOSTEMA;

EID: 0031826248     PISSN: 10889051     EISSN: None     Source Type: Journal    
DOI: 10.1101/gr.8.6.673     Document Type: Article

References (35)

1. Altschul, S.F., W. Gish, W. Miller, E.W. Myers, and D.J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215: 403-410.
2. Ausubel, F.M., R. Brent, R. Kingston, D.D. Moore, J.G. Seidman, J.A. Smith, and K. Struhl. 1995. Current protocols in molecular biology. John Wiley, New York, NY.
3. Breukel, C., J. Wijnen, C. Tops, H. Van der Klift, H. Dawerse, and P.M. Khan. 1990. Vector-Alu PCR: A rapid step in mapping cosmids and YACs. Nucleic Acids Res. 18: 3097.
4. Bultman, S., M.L. Klebig, E.J. Michaud, O. Sweet, M.T. Davisson, and R.P. Woychik. 1994. Molecular analysis of reverse mutations from nonagouti (a) to black-and-tan (at) and white-bellied agouti (aw) reveals alternative forms of agouti transcripts. Genes & Dev. 8: 481-490.
5. Burke, D.T., G.F. Carle, and M.V. Olson. 1987. Cloning of large segments of exogenous DNA into yeast by means of artificial chromosome vectors. Science 236: 806-812.
6. Burke, D.T., J.M. Rossi, J. Leung, D.S. Koos, and S.M. Tilghman. 1991. A mouse genomic library of yeast artificial chromosome clones. Mamm. Genome 1: 65.
7. Chartier, F.L., J.T. Keer, M.J. Sutcliffe, D.A. Henriques, P. Mileham, and S.D.M. Brown. 1992. Construction of a mouse yeast artificial chromosome library in a recombination-deficient strain of yeast. Nature Genet. 1: 132-136.
8. Cook, G.P., I.M. Tomlinson, G. Walter, H. Riethman, N.P. Carter, L. Buluwela, G. Winter, and T.H. Rabbitts. 1994. A map of the human immunoglobulin VH locus completed by analysis of the telomeric region of chromosome 14q. Nature Genet. 7: 162-168.
9. Green, E.D. and M.V. Olson. 1990. Systematic screening of yeast artificial-chromosome libraries by use of the polymerase chain reaction. Proc. Natl. Acad. Sci. 87: 1213-1217.
10. Haldi, M., C. Strickland, P. Lim, V. VanBerkel, X.-N. Chen, D. Noya, J.R. Korenberg, Z. Husain, J. Miller, and E.S. Lander. 1996. A comprehensive large-insert yeast artificial chromosome library for physical mapping of the mouse genome. Mamm. Genome 7: 767-769.
11. Johnston, S.L., M. Strausbauch, G. Sarkar, and P.J. Wettstein. 1995. A novel method for sequencing members of multi-gene families. Nucleic Acids Res. 23: 3074-3075.
12. Jones, E.P., H. Xiao, R.A. Schultz, L. Flaherty, Z. Trachtulec, V. Vincek, Z. Larin, H. Lehrach, and K.F. Lindahl. 1995. MHC class I gene organization in >1.5-Mb YAC contigs from the H2-M region. Genomics 27: 40-51.
13. Kusumi, K., J.S. Smith, J.A. Segre, D.S. Koos, and E.S. Lander. 1993. Construction of a large-insert yeast artificial chromosome library of the mouse genome. Mamm. Genome 4: 391-392.
14. Larin, Z., A.P. Monaco, and H. Lehrach. 1991. Yeast artificial chromosome libraries containing large inserts from mouse and human DNA. Proc. Natl. Acad. Sci. 88: 4123-4127.
15. Lincoln, S.E., M.J. Daly, and E.S. Lander. 1991. PRIMER: A computer program for automatically selecting PCR primers. MIT Center for Genome Research and Whitehead Institute for Biomedical Research, Cambridge, MA.
16. Liu, Y.G. and R.F. Whittier. 1995. Thermal asymmetric interlaced PCR: Automatable amplification and sequencing of insert end fragments from P1 and YAC clones for chromosome walking. Genomics 25: 674-681.
17. Mainville, C., K. Sheehan, L.D. Klaman, C.A. Giorgetti, J.L. Press, and P.H. Brodeur. 1996. Deletional mapping of fifteen mouse Vh gene families reveals a common organization for three Igh haplotypes. J. Immunol. 156: 1038-1046.
18. Nehls, M., K. Lüno, M. Schorpp, D. Pfeifer, S. Krause, U. Matysiak-Scholze, H. Dierbach, and T. Boehm. 1995. YAC/P1 contigs defining the location of 56 microsatellite markers and several genes across a 3.4 cM interval on mouse Chromosome 11. Mamm. Genome 6: 321-331.
19. Nelson, D.L., S.A. Ledbetter, L. Corbo, M.F. Victoria, R. Raminez-Solis, T. Webster, D.H. Ledbetter, and C.T. Caskey. 1989. Alu polymerase chain reaction: A method for rapid isolation of human-specific sequences from complex DNA sources. Proc. Natl. Acad. Sci. 86: 6686-6690.
20. Riley, J., R. Butler, D. Ogilvie, R. Finniear, D. Jenner, S. Powell, R. Anand, J.C. Smith, and A.F. Markham. 1990. A novel, rapid method for the isolation of terminal sequences from yeast artificial chromosome (YAC) clones. Nucleic Acids Res. 18: 2887-2890.
21. Rossi, J.M., D.T. Burkle, J.C. Leung, D.S. Koos, H. Chen, and S.M. Tilghman. 1992. Genomic analysis using yeast artificial chromosome library with mouse DNA inserts. Proc. Natl. Acad. Sci. 89: 2456-2460.
22. Sarkar, G., R.T. Turner, and M.E. Bolander. 1993. Restriction-site PCR: A direct method of unknown sequence retrieval adjacent to a known locus by using universal primers. PCR Methods Appl. 2: 318-322.
23. Schupp, I.W., T. Schlake, T. Kirschbaum, H.G. Zachau, and T. Boehm. 1997. A yeast artificial chromosome contig spanning the mouse immunoglobulin kappa light chain locus. Immunogenetics 45: 180-187.
24. Shizuya, H., B. Birren, U.-J. Kim, V. Mancino, T. Slepak, Y. Tachiiri, and M. Simon. 1992. Cloning and stable maintenance of 300 kilobase-pair fragments of human DNA in Esherichia coli. Proc. Natl. Acad. Sci. 89: 8794-8797.
25. Silverman, G.A. 1993. Isolating vector-insert junctions from yeast artificial chromosomes. PCR Methods Appl. 3: 141-150.
26. Silverman, G.A., R.D. Ye, K.M. Pollock, J.E. Sadler, and S.J. Korsmeyer. 1989. Use of yeast artificial chromosome clones for mapping and walking within human chromosome segment 18q21.3. Proc. Natl. Acad. Sci. 86: 7485-7489.
27. Spencer, F., G. Ketner, C. Connelly, and P. Hieter. 1993. Targeted recombination-based cloning and manipulation of large DNA segments in yeast. Methods: Companion Methods Enzymol. 5: 161-175.
28. Telenius, H., N.P. Carter, C.E. Bebb, M. Nordenskjold, B.A. Ponder, and A. Tunnacliffe. 1992. Degenerate oligonucleotide-primed PCR: General amplification of target DNA by a single degenerate primer. Genomics 13: 718-725.
29. Triglia, T., M.G. Peterson, and D.J. Kemp. 1988. A procedure for in vitro amplification of DNA segments that lie outside the boundaries of known sequences. Nucleic Acids Res. 16: 8186.
30. Tutter, A., P. Brodeur, M. Shlomchik, and R. Riblet. 1991. Structure, map position, and evolution of two newly diverged mouse Ig VH gene families. J. Immunol. 147: 3215-3223.
31. Wang, M., X.-N. Chen, S. Shouse, J. Manson, Q. Wu, R. Li, J. Wrestler, D. Noya, Z.-G. Sun, J. Korenberg, and E. Lai. 1994. Construction and characterization of a human chromosome 2-specific BAC library. Genomics 24: 527-534.
32. Weier, H.U., D. Polikoff, J.J. Fawcett, K.M. Greulich, K.H. Lee, S. Cram, V.M. Chapman, and J.W. Gray. 1994. Generation of five high-complexity painting probe libraries from flow-sorted mouse chromosomes. Genomics 21: 641-644.
33. Wesley, C.S., M. Ben, M. Kreitman, N. Hagag, and W.F. Eanes. 1990. Cloning regions of the Drosophila genome by microdissection of polytene chromosome DNA and PCR with nonspecific primer. Nucleic Acids Res. 18: 599-603.
34. Wesley, C.S., M.P. Myers, and M.W. Young. 1994. Rapid sequential walking from termini of cosmid, P1 and YAC inserts. Nucleic Acids Res. 22: 538-539.
35. Wu, C., S. Zhu, S. Simpson, and P.J. de Jong. 1996. DOP-vector PCR: A method for rapid isolation and sequencing of insert termini from PAC clones. Nucleic Acids Res. 24: 2614-2615.