Induction of large DNA palindrome formation in yeast: Implications for gene amplification and genome stability in eukaryotes

Cell

Volumn 87, Issue 6, 1996, Pages 1115-1122

  Butler, David K ^a,b   Yasuda, Lauren E ^a,c   Yao, Meng Chao ^a  

^a Fred Hutchinson Cancer Research Center   (United States)

^b MONTANA STATE UNIVERSITY BILLINGS   (United States)

^c Seattle Central Community College   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DOUBLE STRANDED DNA; ENDONUCLEASE; GALACTOSE; GLUCOSE; PALINDROMIC DNA;

ARTICLE; CHROMOSOME BREAKAGE; CONTROLLED STUDY; DNA STRAND BREAKAGE; EUKARYOTE; GENE AMPLIFICATION; GENOME; NONHUMAN; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE; TETRAHYMENA;

CILIOPHORA; EUKARYOTA; SACCHAROMYCES CEREVISIAE; TETRAHYMENA;

EID: 0030582735     PISSN: 00928674     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0092-8674(00)81805-X     Document Type: Article

References (39)

1. Beverley, S.M., Coderre, J.A., Santi, D.V., and Schimke, R.T. (1984). Unstable DNA amplifications in methotrexate-resistant Leishmania consist of extrachromosomal circles which relocalize during stabilization. Cell 38, 431-439.
2. Bishop, M.J. (1987). The molecular genetics of cancer. Science 235, 305-311.
3. Butler, D.K., Yasuda L.E., and Yao, M.-C. (1995). An intramolecular recombination mechanism for the formation of the rRNA gene palindrome of Tetrahymena thermophila. Mol. Cell. Biol. 15, 7117-7126.
4. Carroll, S.M., Gaudray, P., DeRose, M.L., Emery, J.F., Meinkoth, J.L., Nakkim, E., Subler, M., and Wahl, G.M. (1987). Characterization of an episome produced in hamster cells that amplify a transfected CAD gene at high frequency: functional evidence for a mammalian replication origin. Mol. Cell. Biol. 7, 1740-1750.
5. Carroll, S.M., DeRose, M.L., Gaudray, P., Moore, C.M., Needham-Vandevanter, D., Von Hoff, D.D., and Wahl, G.M. (1988). Double minute chromosomes can be produced from precursors derived from a chromosomal deletion. Mol. Cell. Biol. 8, 1525-1533.
6. Cockburn, A.R., Taylor, W.C., and Firtel, R.A. (1978). Dictyostelium rDNA consists of nonchromosomal palindromic dimers containing 5S and 36S coding regions. Chromosoma 70, 19-29.
7. Dorsey, M., Peterson, C., Bray, K., and Paquin, C.E. (1992). Spontaneous amplification of the ADH4 gene in Saccharomyces cerevisiae. Genetics 132, 943-950.
8. Engberg, J., Anderson, P., and Leick, V. (1976). Free ribosomal DNA molecules from Tetrahymena pyriformis GL are giant palindromes. J. Mol. Biol. 104, 455-470.
9. Fan, Q., and Yao, M.-C. (1996). New telomere formation coupled with site-specific chromosome breakage in Tetrahymena thermophila. Mol. Cell. Biol. 16, 1267-1274.
10. Ford, M., and Fried, M. (1986). Large inverted duplications are associated with gene amplification. Cell 45, 425-430.
11. Ford, M., Davies, B., Griffiths, M., Wilson, J., and Fried, M. (1985). Isolation of a gene enhancer within an amplified inverted duplication after "expression selection." Proc. Natl. Acad. Sci. USA 82, 3370-3374.
12. Fried, M., Feo, S., and Heard, E. (1991). The role of inverted duplication in the generation of gene amplification in mammalian cells. Biochem. Biophys. Acta 1090, 143-155.
13. Friedberg, E.C., Siede, W., and Copper, A.J. (1991). Cellular responses to DNA damage in yeast. In The Molecular and Cellular Biology of the Yeast Saccharomyces: Genome Dynamics, Protein Synthesis, and Energetics. (Cold Spring Harbor, New York: Cold Spring Harbor Laboratory Press), pp. 147-190.
14. Grondin, K., Roy, G., and Ouellette, M. (1996). Formation of extra-chromosomal circular amplicons with direct or inverted duplications in drug-resistant Leishmania tarentolae. Mol. Cell. Biol. 16, 3587-3595.
15. Haber, J.E. (1995). In vivo biochemistry: physical monitoring of recombination induced by site-specific endonucleases. BioEssays 17, 609-620.
16. Hieter, P., Mann, C., Snyder, M., and Davis, R.W. (1985). Mitotic stability of yeast chromosomes: a colony color assay that measures nondisjunction and chromosome loss. Cell 40, 381-392.
17. Hyrien, O., Debatisse, M., Buttin, G., and de Saint Vincent, R. (1988). The multicopy appearance of a large inverted duplication and the sequence at the inversion joint suggest a new model for gene amplification. EMBO J. 7, 407-417.
18. Kafatos, F.C., Orr, W., and Delidakis, C. (1985). Developmentally regulated gene amplification. Trends Genet. 1, 301-306.
19. Karrer, K.M., and Gall, J.G. (1976). The macronuclear ribosomal DNA of Tetrahymena pyriformis is a palindrome. J. Mol. Biol. 104, 421-453.
20. Koshland, D., Rutledge, L., Fitzgerald-Hayes, M., and Hartwell, L.H. (1987). A genetic analysis of dicentric minichromosomes in Saccharomyces cerevisiae. Cell 48, 801-812.
21. 1-3 repeats. Genes Dev. 7, 2345-2356.
22. Kunes, S., Botstein, D., and Fox, M.S. (1990). Synapsis-mediated fusion of free DNA ends forms inverted dimer plasmids in yeast. Genetics 124, 67-80.
23. Leach, D.R.F. (1994). Long DNA palindromes, cruciform structures, genetic instability and secondary structure repair. BioEssays 16, 893-900.
24. Ma, C., Looney, J.E., Leu, T.-H., and Hamlin, J.L. (1988). Organization and genesis of dihydrofolate reductase amplicons in the genome of a methotrexate-resistant Chinese hamster ovary cell line. Mol. Cell. Biol. 8, 2316-2327.
25. Ma, C., Martin, S., Trask, B., and Hamlin, J.L. (1993). Sister chromatid fusion initiates amplification of the dihydrofolate reductase gene in Chinese hamster cells. Genes Dev. 7, 605-620.
26. Nalbantoglu, J., and Mueth, M. (1986). DNA amplification-deletion in a spontaneous mutation of the hamster aprt locus: structure and sequence of the novel joint. Nucl. Acids Res. 14, 8361-8371.
27. Ouellette, M., Hettema, E., Wust, D., Fase-Fowler, F., and Borst, P. (1991). Direct and inverted DNA repeats associated with P-glycoprotein gene amplification in drug resistant Leishmania. EMBO J. 10, 1009-1016.
28. Raghuraman, M.K., Brewer, B.J., and Fangman, W.L. (1994). Activation of a yeast replication origin near a double-stranded DNA break. Genes Dev. 8, 554-562.
29. Sandell, L.L., and Zakian, V.A. (1993). Loss of a yeast telomere: arrest, recovery and chromosome loss. Cell 75, 729-739.
30. Sikorski, R.S., and Hieter, P. (1989). A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae. Genetics 122, 19-27.
31. Smith, K.A., Stark, M.B., Gorman, P.A., and Stark, G.R. (1992). Fusions near telomeres occur very early in the amplification of CAD genes in Syrian hamster cells. Proc. Natl. Acad. Sci. USA 89, 5427-5431.
32. Stark, G.R., Debatisse, M., Giulotto, E., and Wahl, G.M. (1989). Recent progress in understanding mechanisms of mammalian DNA amplification. Cell 57, 901-908.
33. Toledo, F., Le Roscouet, D., Buttin, G., and Debatisse, M. (1992). Co-amplified markers alternate in megabase long chromosomal inverted repeats and cluster independently in interphase nuclei at early steps of mammalian gene amplification. EMBO J. 11, 2665-2673.
34. Vogt, V.M., and Braun, R. (1976). Structure of ribosomal DNA in Physarum polycephalum. J. Mol. Biol. 106, 567-587.
35. Walton, J.D., Paquin, C.E., Kaneko, K., and Williamson, V.M. (1986). Resistance to antimycin A in yeast by amplification of ADH4 on a linear, 42 kb palindromic plasmid. Cell 46, 857-863.
36. Wilson, R., and 54 others. (1994). 2.2 Mb of contiguous nucleotide sequence from chromosome III of C. elegans. Nature 368, 32-38.
37. Windle, B.E., and Wahl, G.M. (1992). Molecular dissection of mammalian gene amplification: new mechanistic insights revealed by analyses of very early events. Mutat. Res. 276, 199-224.
38. Windle, B., Draper, B.W., Yin, Y.X., O'Gorman, S., and Wahl, G.M. (1991). A central role for chromosome breakage in gene amplification, deletion formation, and amplicon integration. Genes Dev. 5, 160-174.
39. Yasuda, L.F., and Yao, M.-C. (1991). Short inverted repeats at a free end signal large palindromic DNA formation in Tetrahymena. Cell 67, 505-516.