Long inverted repeats are an at-risk motif for recombination in mammalian cells

Genetics

Volumn 153, Issue 4, 1999, Pages 1873-1883

  Waldman, Alan S ^a   Tran, Hiep ^b   Goldsmith, Edie C ^a   Resnick, Michael A ^b  

^a UNIVERSITY OF SOUTH CAROLINA   (United States)

^b NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL CELL; ARTICLE; DNA SEQUENCE; GENE AMPLIFICATION; GENE INSERTION; GENETIC RECOMBINATION; MAMMAL; NONHUMAN; PLASMID; PRIORITY JOURNAL;

ANIMALS; BASE SEQUENCE; DNA PRIMERS; MICE; RECOMBINATION, GENETIC; REPETITIVE SEQUENCES, NUCLEIC ACID;

ANIMALIA; HERPES; MAMMALIA; SIMPLEXVIRUS;

EID: 0032759353     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (56)

1. AKGUN, E., J. ZAHN, S. BAUMES, G. BROWN, F. LIANG et al., 1997 Palindrome resolution and recombination in the mammalian germ line. Mol. Cell. Biol. 17: 5559-5570.
2. ALBERTINI, A. M., M. HOFER, M. P. CALOS and J. H. MILLER, 1982 On the formation of spontaneous deletions: the importance of short sequence homologies in the generation of large deletions. Cell 29: 319-328.
3. BONNEAUD, N., K. O. OZIER, G. Y. LI, M. LABOUESSE, S. L. MINVIELLE et al., 1991 A family of low and high copy replicative, integrative, and single-stranded S. cerevisiae/E. coli shuttle vectors. Yeast 7: 609-615.
4. BRENNEMAN, M., F. S. GIMBLE and J. H. WILSON, 1996 Stimulation of intrachromosomal homologous recombination in human cells by electroporation with site-specific endonucleases. Proc. Natl. Acad. Sci. USA 93: 3608-3612.
5. CANCEILL, D., and S. D. EHRLICH, 1996 Copy-choice recombination mediated by DNA polymerase III holoenzyme from Escherichia coli. Proc. Natl. Acad. Sci. USA 93: 6647-6652.
6. CAPIZZI, R. L., and J. W. JAMESON, 1973 A table for the estimation of the spontaneous mutation rate of cells in culture. Mutat. Res. 17: 147-148.
7. CHEN, X., S. V. S. MARIAPPAN, P. CATASTI, R. R. RATLIFF, R. K. MOYZIS et al., 1995 Hairpins are formed by the single DNA strands of the fragile X triplet repeats: structure and biological implications. Proc. Natl. Acad. Sci. USA 92: 5199-5203.
8. CHOULIKA, A., A. PERRIN, B. DUJON and J. F. NICOLAS, 1995 Induction of homologous recombination in mammalian chromosomes by using the I-SceI system of Saccharomyces cerevisiae. Mol. Cell. Biol. 15: 1968-1973.
9. COLLICK, A., J. DREW, J. PENBERTH, P. BOIS, J. LUCKETT et al., 1996 Instability of long inverted repeats within mouse transgenes. EMBO J. 15: 1163-1171.
10. COLLINS, J., 1981 Instability of palindromic DNA in Escherichia coli. Cold Spring Harbor Symp. Quant. Biol. 45: 409-416.
11. FREUDENREICH, C. H., S. M. KANTROW and V. A. ZAKIAN, 1998 Expansion and length-dependent fragility of CTG repeats in yeast. Science 279: 853-856.
12. GACY, A. M., G. GOELLNER, N. JURANIC, S. MACURA and C. T. MCMURRAY, 1995 Trinucleotide repeats that expand in human disease form hairpin structures in vitro. Cell 81: 533-540.
13. GLICKMAN, B. W., and L. S. RIPLEY, 1984 Structural intermediates of deletion mutagenesis: a role for palindromic DNA. Proc. Natl. Acad. Sci. USA 81: 512-516.
14. GODWIN, A. R., and R. M. LISKAY, 1994 The effects of insertions on mammalian intrachromosomal recombination. Genetics 136: 607-617.
15. GORDENIN, D. A., and M. A. RESNICK, 1998 Yeast ARMs (DNA at risk motifs) can reveal sources of genome instability. Mutat. Res. 400: 45-58.
16. GORDENIN, D. A., A. L. MALKOVA, A. PETERZEN, V. N. KUKLIKOV, Y. I. PAVLOV et al., 1992 Transposon Tn5 excision in yeast: influence of DNA polymerases alpha, delta, and epsilon and repair genes. Proc. Natl. Acad. Sci. USA 89: 3785-3789.
17. GORDENIN, D. A., K. S. LOBACHEV, N. P. DEGTYAREVA, A. L. MALKOVA, E. PERKINS et al., 1993 Inverted DNA repeats: a source of eukaryotic genomic instability. Mol. Cell. Biol. 13: 5315-5322.
18. GORDENIN, D. A., T. A. KUNKEL and M. A. RESNICK, 1997 Repeat expansion - all in a flap? Nat. Genet. 16: 116-118.
19. HABER, J. E., 1995 In vivo biochemistry: physical monitoring of recombination induced by site-specific endonucleases. Bioessays 17: 609-620.
20. HABER, J. E., 1998 A locus control region regulates yeast recombination. Trends Genet. 14: 317-321.
21. HENDERSON, S. T., and T. D. PETES, 1993 Instability of a plasmid-borne inverted repeat in Saccharomyces cerevisiae. Genetics 134: 57-62.
22. HILLIKER, A. J., S. H. CLARK and A. CHOVNICK, 1988 Genetic analysis of intragenic recombination in Drosophila, pp. 73-90 in The Recombination of Genetic Material, edited by K. B. Low. Academic Press, San Diego.
23. JURKA, J., 1998 Repeats in genomic DNA: mining and meaning. Curr. Opin. Struct. Biol. 8: 333-337.
24. LANGIN, T., H. HAMZA, V. HAEDENS and J. L. ROSSIGNOL, 1988 Reciprocal exchanges instigated by large heterologies in the b2 gene of Ascobolus are not associated with long adjacent hybrid DNA stretches. Genetics 119: 329-336.
25. LEACH, D. R., 1994 Long DNA palindromes, cruciform structures, genetic instability and secondary structure repair. Bioessays 16: 893-900.
26. LETSOU, A., and R. M. LISKAY, 1987 Effect of the molecular nature of mutation on the efficiency of intrachromosomal gene conversion in mouse cells. Genetics 117: 759-769.
27. LINTON, M. F., M. RAABE, V. PIEROTTI and S. G. YOUNG, 1997 Reading frame restoration by transcriptional slippage at long stretches of adenine residues in mammalian cells. J. Biol. Chem. 272: 14127-14132.
28. LISKAY, R. M., and J. L. STACHELEK, 1986 Information transfer between duplicated chromosomal sequences in mammalian cells involves contiguous regions of DNA. Proc. Natl. Acad. Sci. USA 83: 1802-1806.
29. LISKAY, R. M., J. L. STACHELEK and A. LETSOU, 1984 Homologous recombination between repeated chromosomal sequences in mouse cells. Cold Spring Harbor Symp. Quant. Biol. 49: 183-189.
30. LOBACHEV, K. S., B. M. SHOR, H. T. TRAN, W. TAYLOR, J. D. KEEN et al., 1998 Factors affecting inverted repeat stimulation of recombination and deletion in Saccharomyces cerevisiae. Genetics 148: 1507-1524.
31. LUKACSOVICH, T., D. YANG and A. S. WALDMAN, 1994 Repair of a specific double-strand break generated within a mammalian chromosome by yeast endonuclease I-SceI. Nucleic Acids Res. 22: 5649-5657.
32. LURIA, S. F., and M. DELBRUCK, 1943 Mutations of bacteria from virus sensitivity to virus resistance. Genetics 28: 491-511.
33. MICHEL, B., S. D. EHRLICH and M. UZEST, 1997 DNA double-strand breaks caused by replication arrest. EMBO J. 16: 430-438.
34. MITAS, M., 1997 Trinucleotide repeats associated with human disease. Nucleic Acids Res. 25: 2245-2254.
35. MOYNAHAN, M. E., and M. JASIN, 1997 Loss of heterozygosity induced by a chromosomal double-strand break. Proc. Natl. Acad. Sci. USA 94: 8988-8993.
36. NAG, D. K., and A. KURST, 1997 A 140-bp-long palindromic sequence induces double-strand breaks during meiosis in the yeast Saccharomyces cerevisiae. Genetics 146: 835-847.
37. OSMAN, F., and S. SUBRAMANI, 1998 Double-strand break-induced recombination in eukaryotes. Prog. Nucleic Acid Res. Mol. Biol. 58: 263-299.
38. RESNICK, M. A., 1976 The repair of double-strand breaks in DNA: a model involving recombination. J. Theor. Biol. 59: 97-106.
39. ROUET, P., F. SMIH and M. JASIN, 1994 Expression of a site-specific endonuclease stimulates homologous recombination in mammalian cells. Proc. Natl. Acad. Sci. USA 91: 6064-6068.
40. RUSKIN, B., and G. R. FINK, 1993 Mutations in POI.1 increase the mitotic instability of tandem inverted repeats in Saccharomyces cerevisiae. Genetics 134: 43-56.
41. SARGENT, R. G., M. A. BRENNEMAN and J. H. WILSON, 1997 Repair of site-specific double-strand breaks in a mammalian chromosome by homologous and illegitimate recombination. Mol. Cell. Biol. 17: 267-277.
42. SMITH, G. R., 1988 Homologous recombination sites and their recognition, pp. 115-154 in The Recombination of Genetic Material, edited by K. B. Low. Academic Press, San Diego.
43. SOKAL, R. R., and F. J. ROHLF, 1981 Biometry, Ed. 2. W. H. Freeman, San Francisco.
44. SOUTHERN, P. S., and P. BERG, 1982 Transformation of mammalian cells to antibiotic resistance with a bacterial gene under control of the SV40 early promoter. J. Mol. Appl. Genet. 1: 327-341.
45. SUTHERLAND, G. R., and R. I. RICHARDS, 1995 Simple tandem repeats and human genetic disease. Proc. Natl. Acad. Sci. USA 92: 3636-3641.
46. SZOSTAK, J. W., T. L. ORR-WEAVER, R. J. ROTHSTEIN and F. W. STAHL, 1983 The double-strand break repair model for recombination. Cell 33: 25-35.
47. TAGHIAN, D. G., and J. A. NICKOLOFF, 1997 Chromosomal double-strand breaks induce gene conversion at high frequency in mammalian cells. Mol. Cell. Biol. 17: 6386-6393.
48. TRAN, H., N. DEGTYAREVA, D. GORDENIN and M. A. RESMICK, 1997 Altered replication and inverted repeats induce mismatch repair-independent recombination between highly diverged DNAs in yeast. Mol. Cell. Biol. 17: 1027-1036.
49. VIEIRA, J., and J. MESSING, 1982 The pUC plasmids, an M13mp7-derived system for insertion mutagenesis and sequencing with synthetic universal primers. Gene 19: 259-268.
50. VINCENT, A., and T. D. PETES, 1989 Mitotic and meiotic gene conversion of Ty elements and other insertions in Saccharomyces cerevisiae. Genetics 122: 759-772.
51. WAGNER, M. J., J. A. SHARP and W. C. SUMMERS, 1981 Nucleotide sequence of the thymidine kinase gene of herpes simplex virus type 1. Proc. Natl. Acad. Sci. USA 78: 1441-1445.
52. WALDMAN, A. S., and R. M. LISKAY, 1987 Differential effects of base-pair mismatch on intrachromosomal versus extrachromosomal recombination in mouse cell. Proc. Natl. Acad. Sci. USA 84: 5340-5344.
53. WALDMAN, A. S., and B. C. WALDMAN, 1998 Stable transfection of mammalian cells by syringe-mediated mechanical loading of DNA. Anal. Biochem. 258: 216-222.
54. WEAVER, D. T., and M. L. DEPAMPHILIS, 1984 The role of palindromic and non-palindromic sequences in arresting DNA synthesis in vitro and in vivo. J. Mol. Biol. 180: 961-986.
55. WELLS, R. D., 1996 Molecular basis of genetic instability of triplet repeats. J. Biol. Chem. 271: 2875-2878.
56. YANG, D., and A. S. WALDMAN, 1997 Fine-resolution analysis of products of intrachromosomal homeologous recombination in mammalian cells. Mol. Cell. Biol. 17: 3614-3628.