Abstract
The Saccharomyces cerevisiae HO gene and MATa cutting site were used to introduce site-specific double-strand breaks (DSBs) within intrachromosomal recombination substrates in Schizosaccharomyces pombe. The recombination substrates consisted of nontandem direct repeats of ade6 heteroalleles. DSB induction stimulated the frequency of recombinants 2000-fold. The spectrum of DSB-induced recombinants depended on whether the DSB was introduced within one of the ade6 repeats or in intervening unique DNA. When the DSB was introduced within unique DNA, over 99.8% of the recombinants lacked the intervening DNA but retained one copy of ade6 that was wild type or either one of the heteroalleles. When the DSB was located in duplicated DNA, 77% of the recombinants were similar to the deletion types described above, but the single ade6 copy was either wild type or exclusively that of the uncut repeat. The remaining 23% of the induced recombinants were gene convertants with two copies of ade6 and the intervening sequences; the ade6 heteroallele in which the DSB was induced was the recipient of genetic information. Half-sectored colonies were isolated, analyzed and interpreted as evidence of heteroduplex DNA formation. The results are discussed in terms of current models for recombination.
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- Bollag R. J., Elwood D. R., Tobin E. D., Godwin A. R., Liskay R. M. Formation of heteroduplex DNA during mammalian intrachromosomal gene conversion. Mol Cell Biol. 1992 Apr;12(4):1546–1552. doi: 10.1128/mcb.12.4.1546. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Bollag R. J., Liskay R. M. Conservative intrachromosomal recombination between inverted repeats in mouse cells: association between reciprocal exchange and gene conversion. Genetics. 1988 May;119(1):161–169. doi: 10.1093/genetics/119.1.161. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Bollag R. J., Liskay R. M. Direct-repeat analysis of chromatid interactions during intrachromosomal recombination in mouse cells. Mol Cell Biol. 1991 Oct;11(10):4839–4845. doi: 10.1128/mcb.11.10.4839. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Cummins J. E., Mitchison J. M. Adenine uptake and pool formation in the fission yeast Schizosaccharomyces pombe. Biochim Biophys Acta. 1967 Feb 7;136(1):108–120. doi: 10.1016/0304-4165(67)90326-1. [DOI] [PubMed] [Google Scholar]
- Deng W. P., Nickoloff J. A. Mismatch repair of heteroduplex DNA intermediates of extrachromosomal recombination in mammalian cells. Mol Cell Biol. 1994 Jan;14(1):400–406. doi: 10.1128/mcb.14.1.400. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Egel R., Beach D. H., Klar A. J. Genes required for initiation and resolution steps of mating-type switching in fission yeast. Proc Natl Acad Sci U S A. 1984 Jun;81(11):3481–3485. doi: 10.1073/pnas.81.11.3481. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Finn G. K., Kurz B. W., Cheng R. Z., Shmookler Reis R. J. Homologous plasmid recombination is elevated in immortally transformed cells. Mol Cell Biol. 1989 Sep;9(9):4009–4017. doi: 10.1128/mcb.9.9.4009. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Fishman-Lobell J., Rudin N., Haber J. E. Two alternative pathways of double-strand break repair that are kinetically separable and independently modulated. Mol Cell Biol. 1992 Mar;12(3):1292–1303. doi: 10.1128/mcb.12.3.1292. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Gilman J. G. The 12.6 kilobase DNA deletion in Dutch beta zero-thalassaemia. Br J Haematol. 1987 Nov;67(3):369–372. doi: 10.1111/j.1365-2141.1987.tb02360.x. [DOI] [PubMed] [Google Scholar]
- Godwin A. R., Bollag R. J., Christie D. M., Liskay R. M. Spontaneous and restriction enzyme-induced chromosomal recombination in mammalian cells. Proc Natl Acad Sci U S A. 1994 Dec 20;91(26):12554–12558. doi: 10.1073/pnas.91.26.12554. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Gutz H. Site Specific Induction of Gene Conversion in SCHIZOSACCHAROMYCES POMBE. Genetics. 1971 Nov;69(3):317–337. doi: 10.1093/genetics/69.3.317. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hellgren D. Mutagen-induced recombination in mammalian cells in vitro. Mutat Res. 1992 Dec 1;284(1):37–51. doi: 10.1016/0027-5107(92)90023-u. [DOI] [PubMed] [Google Scholar]
- Hoffman C. S., Winston F. A ten-minute DNA preparation from yeast efficiently releases autonomous plasmids for transformation of Escherichia coli. Gene. 1987;57(2-3):267–272. doi: 10.1016/0378-1119(87)90131-4. [DOI] [PubMed] [Google Scholar]
- Jackson J. A., Fink G. R. Gene conversion between duplicated genetic elements in yeast. Nature. 1981 Jul 23;292(5821):306–311. doi: 10.1038/292306a0. [DOI] [PubMed] [Google Scholar]
- Kallenbach S., Rougeon F. A V(D)J site-specific recombination model involving no compulsory double-stranded break formation at the coding segments. Res Immunol. 1992 Nov-Dec;143(9):873–878. doi: 10.1016/0923-2494(92)80110-7. [DOI] [PubMed] [Google Scholar]
- Klein H. L. Different types of recombination events are controlled by the RAD1 and RAD52 genes of Saccharomyces cerevisiae. Genetics. 1988 Oct;120(2):367–377. doi: 10.1093/genetics/120.2.367. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Kostriken R., Heffron F. The product of the HO gene is a nuclease: purification and characterization of the enzyme. Cold Spring Harb Symp Quant Biol. 1984;49:89–96. doi: 10.1101/sqb.1984.049.01.012. [DOI] [PubMed] [Google Scholar]
- Kostriken R., Strathern J. N., Klar A. J., Hicks J. B., Heffron F. A site-specific endonuclease essential for mating-type switching in Saccharomyces cerevisiae. Cell. 1983 Nov;35(1):167–174. doi: 10.1016/0092-8674(83)90219-2. [DOI] [PubMed] [Google Scholar]
- Lehrman M. A., Schneider W. J., Südhof T. C., Brown M. S., Goldstein J. L., Russell D. W. Mutation in LDL receptor: Alu-Alu recombination deletes exons encoding transmembrane and cytoplasmic domains. Science. 1985 Jan 11;227(4683):140–146. doi: 10.1126/science.3155573. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lin F. L., Sperle K., Sternberg N. Intermolecular recombination between DNAs introduced into mouse L cells is mediated by a nonconservative pathway that leads to crossover products. Mol Cell Biol. 1990 Jan;10(1):103–112. doi: 10.1128/mcb.10.1.103. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lin F. L., Sperle K., Sternberg N. Model for homologous recombination during transfer of DNA into mouse L cells: role for DNA ends in the recombination process. Mol Cell Biol. 1984 Jun;4(6):1020–1034. doi: 10.1128/mcb.4.6.1020. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lin F. L., Sperle K., Sternberg N. Repair of double-stranded DNA breaks by homologous DNA fragments during transfer of DNA into mouse L cells. Mol Cell Biol. 1990 Jan;10(1):113–119. doi: 10.1128/mcb.10.1.113. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lin F. L., Sternberg N. Homologous recombination between overlapping thymidine kinase gene fragments stably inserted into a mouse cell genome. Mol Cell Biol. 1984 May;4(5):852–861. doi: 10.1128/mcb.4.5.852. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Liskay R. M., Stachelek J. L., Letsou A. Homologous recombination between repeated chromosomal sequences in mouse cells. Cold Spring Harb Symp Quant Biol. 1984;49:183–189. doi: 10.1101/sqb.1984.049.01.021. [DOI] [PubMed] [Google Scholar]
- Ludwig D. L., Stringer J. R. Spontaneous and induced homologous recombination between lacZ chromosomal direct repeats in CV-1 cells. Somat Cell Mol Genet. 1994 Jan;20(1):11–25. doi: 10.1007/BF02257482. [DOI] [PubMed] [Google Scholar]
- Morel Y., David M., Forest M. G., Betuel H., Hauptman G., Andre J., Bertrand J., Miller W. L. Gene conversions and rearrangements cause discordance between inheritance of forms of 21-hydroxylase deficiency and HLA types. J Clin Endocrinol Metab. 1989 Mar;68(3):592–599. doi: 10.1210/jcem-68-3-592. [DOI] [PubMed] [Google Scholar]
- Nag D. K., Petes T. D. Physical detection of heteroduplexes during meiotic recombination in the yeast Saccharomyces cerevisiae. Mol Cell Biol. 1993 Apr;13(4):2324–2331. doi: 10.1128/mcb.13.4.2324. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Orr-Weaver T. L., Szostak J. W., Rothstein R. J. Yeast transformation: a model system for the study of recombination. Proc Natl Acad Sci U S A. 1981 Oct;78(10):6354–6358. doi: 10.1073/pnas.78.10.6354. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ozenberger B. A., Roeder G. S. A unique pathway of double-strand break repair operates in tandemly repeated genes. Mol Cell Biol. 1991 Mar;11(3):1222–1231. doi: 10.1128/mcb.11.3.1222. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ponticelli A. S., Sena E. P., Smith G. R. Genetic and physical analysis of the M26 recombination hotspot of Schizosaccharomyces pombe. Genetics. 1988 Jul;119(3):491–497. doi: 10.1093/genetics/119.3.491. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ray A., Siddiqi I., Kolodkin A. L., Stahl F. W. Intra-chromosomal gene conversion induced by a DNA double-strand break in Saccharomyces cerevisiae. J Mol Biol. 1988 May 20;201(2):247–260. doi: 10.1016/0022-2836(88)90136-2. [DOI] [PubMed] [Google Scholar]
- Resnick M. A. The repair of double-strand breaks in DNA; a model involving recombination. J Theor Biol. 1976 Jun;59(1):97–106. doi: 10.1016/s0022-5193(76)80025-2. [DOI] [PubMed] [Google Scholar]
- Ronne H., Rothstein R. Mitotic sectored colonies: evidence of heteroduplex DNA formation during direct repeat recombination. Proc Natl Acad Sci U S A. 1988 Apr;85(8):2696–2700. doi: 10.1073/pnas.85.8.2696. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Thomas B. J., Rothstein R. Elevated recombination rates in transcriptionally active DNA. Cell. 1989 Feb 24;56(4):619–630. doi: 10.1016/0092-8674(89)90584-9. [DOI] [PubMed] [Google Scholar]
- Thomas B. J., Rothstein R. The genetic control of direct-repeat recombination in Saccharomyces: the effect of rad52 and rad1 on mitotic recombination at GAL10, a transcriptionally regulated gene. Genetics. 1989 Dec;123(4):725–738. doi: 10.1093/genetics/123.4.725. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Vnencak-Jones C. L., Phillips J. A., 3rd Hot spots for growth hormone gene deletions in homologous regions outside of Alu repeats. Science. 1990 Dec 21;250(4988):1745–1748. doi: 10.1126/science.1980158. [DOI] [PubMed] [Google Scholar]
- Wahls W. P., Moore P. D. Relative frequencies of homologous recombination between plasmids introduced into DNA repair-deficient and other mammalian somatic cell lines. Somat Cell Mol Genet. 1990 Jul;16(4):321–329. doi: 10.1007/BF01232460. [DOI] [PubMed] [Google Scholar]
- Waldman A. S., Waldman B. C. Stimulation of intrachromosomal homologous recombination in mammalian cells by an inhibitor of poly(ADP-ribosylation). Nucleic Acids Res. 1991 Nov 11;19(21):5943–5947. doi: 10.1093/nar/19.21.5943. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wang Y. Y., Maher V. M., Liskay R. M., McCormick J. J. Carcinogens can induce homologous recombination between duplicated chromosomal sequences in mouse L cells. Mol Cell Biol. 1988 Jan;8(1):196–202. doi: 10.1128/mcb.8.1.196. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wu T. C., Lichten M. Meiosis-induced double-strand break sites determined by yeast chromatin structure. Science. 1994 Jan 28;263(5146):515–518. doi: 10.1126/science.8290959. [DOI] [PubMed] [Google Scholar]
- Würgler F. E. International Commission for Protection against Environmental Mutagens and Carcinogens. Recombination and gene conversion. Mutat Res. 1992 Dec 1;284(1):3–14. doi: 10.1016/0027-5107(92)90020-3. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Yuan L. W., Keil R. L. Distance-independence of mitotic intrachromosomal recombination in Saccharomyces cerevisiae. Genetics. 1990 Feb;124(2):263–273. doi: 10.1093/genetics/124.2.263. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Zehfus B. R., McWilliams A. D., Lin Y. H., Hoekstra M. F., Keil R. L. Genetic control of RNA polymerase I-stimulated recombination in yeast. Genetics. 1990 Sep;126(1):41–52. doi: 10.1093/genetics/126.1.41. [DOI] [PMC free article] [PubMed] [Google Scholar]