A new bacteriophage P1–derived vector for the propagation of large human DNA fragments

Nature Genetics

Volumn 6, Issue 1, 1994, Pages 84-89

  Loannou, Panayiotis A ^a,d   Amemiya, Chris T ^a,e   Garnes, Jeffrey ^a   Kroisel, Peter M ^a,f   Shizuya, Hiroaki ^b   Chen, Chira ^a,c   Batzer, Mark A ^a   de Jong, Pieter J ^a,c  

^a LAWRENCE LIVERMORE NATIONAL LABORATORY   (United States)

^b CALIFORNIA INSTITUTE OF TECHNOLOGY   (United States)

^c ROSWELL PARK CANCER INSTITUTE   (United States)

^d CYPRUS INSTITUTE OF NEUROLOGY AND GENETICS   (Cyprus)

^e BOSTON UNIVERSITY SCHOOL OF MEDICINE   (United States)

^f Department of Medical Biology and Human Genetics ^*  (Austria)

Author keywords

[No Author keywords available]

Indexed keywords

DNA FRAGMENT; RECOMBINANT DNA;

ARTICLE; BACTERIOPHAGE; CHIMERA; DNA LIBRARY; FLUORESCENCE IN SITU HYBRIDIZATION; GENE MAPPING; GENE STRUCTURE; GENETIC ANALYSIS; NONHUMAN; PRIORITY JOURNAL;

BACTERIOPHAGE P1; BASE SEQUENCE; CLONING, MOLECULAR; DNA, RECOMBINANT; ESCHERICHIA COLI; GENE LIBRARY; GENETIC VECTORS; HUMANS; IN SITU HYBRIDIZATION, FLUORESCENCE; MOLECULAR SEQUENCE DATA;

EID: 0028318417     PISSN: 10614036     EISSN: 15461718     Source Type: Journal    
DOI: 10.1038/ng0194-84     Document Type: Article

References (47)

1. Collins, J. & Hohn, B. Cosmids: a type of plasmid gene-cloning vector that is packageable in vitro in bacteriophage λ heads. Proc. natn. Acad. Sci. U. S. A. 75, 4242-4246 (1978).
2. Harrison-Lavoie, K. J., John, R. M., Porteous, D. J. & Little, P. F. A cosmid clone map derived from a small region of human chromosome 11. Genomics 5, 501-509 (1989).
3. Craig, A. G., Nizetlc, D., Hoheisel, J. D., Zehetner, G. & Lehrach, H. Ordering of cosmid clones covering the herpes simplex virus type I (HSV-I) genome: a test case for fingerprinting by hybridisation. Nucl. Acids Res. 18, 2653-2660 (1990).
4. Stallings, R. L. et al. Physical mapping of human chromosomes by repetitive sequence fingerprinting. Proc. natn. Acad. Sci. U. S. A. 87, 6218-6222 (1990).
5. Trask, B. J. et al. Fluorescence in situ hybridization mapping of human chromosome 19: cytogenetic band location of 540 cosmids and 70 genes or DNA markers. Genomics 15, 133-145 (1993).
6. Burke, D. T., Carle, G. F. & Olson, M. V. Cloning of large segments of exogenous DNA into yeast by means of artificial chromosome vectors. Science 236, 806-812 (1987).
7. Schlessinger, D. et al. Yeast artificial chromosome-based genome mapping: some lessons from Xq24-q28. Genomics 11, 783-793 (1991).
8. Larin, Z., Monaco, A. P. & Lehrach, H. Yeast artificial chromosome libraries containing large inserts from mouse and human DNA. Proc. natn. Acad. Sci. U. S. A. 88, 4123-4127 (1991).
9. Chumakov, I. M. et al. Continuum of overlapping clones spanning the entire human chromosome-21q. Nature 359, 380-387 (1992).
10. Foote, S., Vollrath, D., Hilton, A. & Page, D. C. The human Y-chromosome-overlapping clones spanning the euchromatlc region. Science 258, 60-66 (1992).
11. Maier, E. et al. Complete coverage of the Schizosaccaromyces-pombe genome in yeast artificial chromosomes. Nature Genet. 1, 273-277 (1992).
12. Fuscoe, J. C., MoNinch, J. S., Collins, C. C. & VanDilla, M. Human chromosome-specific DNA libraries: construction and purity analysis. Cytogenet. cell Genet. 50, 211-215 (1989).
13. De Jong, P. J. et al. Human chromosome-specific partial digest libraries in lambda and cosmid vectors. Cytogenet. cell Genet. 51, 985 (1989).
14. Nizetic, D. et al. Construction, arraying, and high-density screening of large insert libraries of human chromosomes X and 21: their potential use as reference libraries. Proc. natn. Acad. Sci. U. S. A. 88, 3233-3237 (1991).
15. Yokobata, K., Trenchak, B. & de Jong, P. J. Rescue of unstable cosmids by in vitro packaging. Nucl. Acids Res. 19, 403-404 (1991).
16. Kim, U. J., Shizuya, H., de Jong, P. J., Birren, B. & Simon, M. I. Stable propagation of cosmid sized human DNA inserts in an F factor based vector. Nucl. Acids Res. 20, 1083-1085 (1992).
17. Burke, D. T. & Olson, M. V. Preparation of clone libraries in yeast artificial chromosome vectors. Meth. Enzymol. 194, 251-270 (1991).
18. Dausset, J. et al. The CEPH YAC library. Behring Institute Mitteilungen Apr., 13-20 (1992).
19. Green, E. D., Riethman, H. C., Dutchik, J. E. & Olson, M. V. Detection and characterization of chimeric yeast artificial chromosome clones. Genomics 11, 658-659.
20. Bates, G. P. et al. Characterization of a yeast artificial chromosome contig spanning the Huntington’s disease gene candidate region. Nature Genet. 1, 180-187 (1992).
21. Baldini, A. et al. Chromosomal assignment of human YAC clones by fluorescence in situ hybridization: use of single-yeast-colony PCR and multiple labeling. Genomics 14, 181-184 (1992).
22. Pierce, J. C., Sternberg, N., Sauer B. A mouse genomic library in the bacteriophage P1 cloning system: Organization and characterization. Mamm. Genome 3, 550-558 (1992).
23. Hosoda, F., Nishimura, S., Uchida, H. & Ohki, M., An F-factor based cloning system for large DNA fragments. Nucl. Acids Res. 11, 3863-3869 (1990).
24. Leonardo, E. D. & Sedivy, J. M. A new vector for cloning large eukaryotic DNA segments in Escherichia coli. Bio/Technology 8, 841-844 (1990).
25. Shizuya, H. et al. Cloning and stable maintenance of 300-kilobase-pair fragments of human DNA in Escherichia-coli using an F-factor-based vector. Proc. natn. Acad. Sci. U. S. A. 89, 8794-8797 (1992).
26. Rao, V. B., Thaker, V. & Black, L. W. A phage T4 in vitro packaging system for cloning long DNA molecules. Gene 113, 25-33 (1992).
27. Sternberg, N., Ruether, J. & de Riel, K. Generation of a 50, 000-member human DNA library with an average DNA insert size of 75-100 kbp in a bacteriophage P1 cloning vector. New Biologist 2, 151-162 (1990).
28. Koppes, L. J. H., F-plasmid replication in Escherichia-coli K-12. J. Bacteriol. 174, 2121-2123 (1992).
29. Pierce, J. C., Sauer, B. & Sternberg, N. A positive selection vector for cloning high molecular weight DNA by the bacteriophage P1 system: improved cloning efficacy. Proc. natn. Acad. Sci. U. S. A. 89, 2056-2060 (1992).
30. Hanahan, D., Jessee, J. & Bloom, F. R. Plasmid transformation ofEscherichia-coli and other bacteria. Meth. Enzymol. 204, 63-113 (1991).
31. Grant, S. G., Jessee, J., Bloom, F. R. & Hanahan, D. Differential plasmid rescue from transgenic mouse DNAs into Escherichia-coli methylation-restriction mutants. Proc. natn. Acad. Sci. U. S. A. 87, 4645-4649 (1990).
32. Neil, D. L. et al. Structural instability of human tandemly repeated DNA sequences cloned in yeast artificial chromosome vectors. Nucl. Acids. Res. 18, 1421-1428 (1991).
33. Aslanidis, C. et al. Cloning of the essential myotonlc dystrophy region and mapping of the putative defect. Nature 355, 548-551 (1992).
34. Vilageliu, L. & Tyler-Smith, C. Structural instability of YAC clones and the use of recombinant-deficient yeast host strains. In Techniques for the Analysis of Complex Genomes (ed. Anand, R.) 93-112 (Academic Press, New York, 1992).
35. Chartier, F. L. et al. Construction of a mouse yeast artificial chromosome library in a recombination-deficient strain of yeast. Nature Genet. 1, 132-136.
36. Bellanne-Chantelot, C. et al. Mapping the whole human genome by fingerprinting yeast artificial chromosomes. Cell 70, 1059-1068 (1992).
37. Parimoo, S., Patanjali, S. R., Shukla, H., Chaplin, D. D. & Weissman, S. M. cDNA selection: efficient PCR approach for the selection of cDNAs encoded in large chromosomal DNA fragments. Proc. natn. Acad. Sci. U. S. A. 88, 9623-9627 (1991).
38. Morgan, J. G., Dolganov, G. M., Robbins, S. E., Hinton, L. M. & Lovett, M. The selective isolation of novel cDNAs encoded by the regions surrounding the human interleukin 4 and 5 genes. Nucl. Acids Res. 20, 5173-5179 (1992).
39. Duyk, G. M., Kim, S. W., Myers, R. M. & Cox, D. R. Exon trapping: a genetic screen to identify candidate transcribed sequences in cloned mammalian genomic DNA. Proc. natn. Acad. Sci. U. S. A. 87, 8995-8999 (1990).
40. Buckler, A. J. et al. Exon amplification: astrategy to isolate mammalian genes based on RNA splicing. Proc. natn. Acad. Sci. U. S. A. 88, 4005-4009 (1991).
41. Larin, Z. & Lehrach, H. Yeast artificial chromosomes: an alternative approach to the molecular analysis of mouse developmental mutations. Genetical Research 56, 203-208 (1990).
42. Shedl, A., Montoliu, L., Kelsey, G. & Shultz, G. A yeast artificial chromosome covering the tyrosinase gene confers copy number-dependent expression In transgenic mice. Nature 362, 258-261 (1993).
43. Strauss, W. M. et al. Germ line transmission of a yeast artificial chromosome spanning the murine alpha 1 (l) collagen locus. Science 259, 1904-1907 (1993).
44. Sambrook, J., Fritsch, E. F. & Maniatis, T. Molecular Cloning, a Laboratory Manual 2nd edn. (Cold Spring Harbor Laboratory press, New York 1989).
45. Birnboim, H. C. & Doly, J. A rapid alkaline extraction procedure for screening recombinant plasmid DNA. Nucl. Acids Res. 7, 1513-1523 (1979).
46. Kroisel, P. M., Ioannou, P. A. & de Jong, P. J. PCR probes for chromosomalin situ hybridization of large-insert bacterial recombinants. Cytogenet. cell Genet. 65, 97-100 (1994).
47. Olsen, A. S. et al. Automated production of high density cosmid and YAC colony filters with a robotic workstation. BioTechniques 14, 116-123 (1993).