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Molecular and Cellular Biology Volume 17, 1997 - Issue 1
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Research Article

Influence of DNA Sequence Identity on Efficiency of Targeted Gene Replacement

M. Tina NegrittoDepartment of Molecular Biology, Beckman Research Institute, and Division of Gene Therapy, City of Hope National Medical Center, Duarte, California91010
,
Xuli WuDepartment of Molecular Biology, Beckman Research Institute, and Division of Gene Therapy, City of Hope National Medical Center, Duarte, California91010
,
Tiffany KuoDepartment of Molecular Biology, Beckman Research Institute, and Division of Gene Therapy, City of Hope National Medical Center, Duarte, California91010
,
Sheena ChuDepartment of Molecular Biology, Beckman Research Institute, and Division of Gene Therapy, City of Hope National Medical Center, Duarte, California91010
&
Adam M. BailisDepartment of Molecular Biology, Beckman Research Institute, and Division of Gene Therapy, City of Hope National Medical Center, Duarte, California91010Correspondence[email protected]
Pages 278-286 | Received 17 Jul 1996, Accepted 22 Oct 1996, Published online: 29 Mar 2023

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Glenn M. Manthey & Adam M. Bailis. (2002) Multiple Pathways Promote Short-Sequence Recombination in Saccharomyces cerevisiae. Molecular and Cellular Biology 22:15, pages 5347-5356.
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Beth Elliott & Maria Jasin. (2001) Repair of Double-Strand Breaks by Homologous Recombination in Mismatch Repair-Defective Mammalian Cells. Molecular and Cellular Biology 21:8, pages 2671-2682.
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M. Cristina Negritto, Junzhuan Qiu, Dawn O. Ratay, Binghui Shen & Adam M. Bailis. (2001) Novel Function of Rad27 (FEN-1) in Restricting Short-Sequence Recombination. Molecular and Cellular Biology 21:7, pages 2349-2358.
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Julang Li, Leah R. Read & Mark D. Baker. (2001) The Mechanism of Mammalian Gene Replacement Is Consistent with the Formation of Long Regions of Heteroduplex DNA Associated with Two Crossing-Over Events. Molecular and Cellular Biology 21:2, pages 501-510.
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Bum-Soo Lee, Liu Bi, David J. Garfinkel & Adam M. Bailis. (2000) Nucleotide Excision Repair/TFIIH Helicases Rad3 and Ssl2 Inhibit Short-Sequence Recombination and Ty1 Retrotransposition by Similar Mechanisms. Molecular and Cellular Biology 20:7, pages 2436-2445.
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Wenliang Chen & Sue Jinks-Robertson. (1998) Mismatch Repair Proteins Regulate Heteroduplex Formation during Mitotic Recombination in Yeast. Molecular and Cellular Biology 18:11, pages 6525-6537.
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Nathan Pirakitikulr, Nili Ostrov, Pamela Peralta-Yahya & Virginia W. Cornish. (2010) PCRless library mutagenesis via oligonucleotide recombination in yeast. Protein Science 19:12, pages 2336-2346.
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Liangliang Li, Martine Jean & François Belzile. (2006) The impact of sequence divergence and DNA mismatch repair on homeologous recombination in Arabidopsis. The Plant Journal 45:6, pages 908-916.
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Errol C. Friedberg, Graham C. Walker, Wolfram Siede, Richard D. Wood, Roger A. Schultz & Tom Ellenberger. 2005. DNA Repair and Mutagenesis. DNA Repair and Mutagenesis 389 447 .
Lance D. Langston & Lorraine S. Symington. (2004) Gene targeting in yeast is initiated by two independent strand invasions. Proceedings of the National Academy of Sciences 101:43, pages 15392-15397.
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Chris Allen, Akihiro Kurimasa, Mark A. Brenneman, David J. Chen & Jac A. Nickoloff. (2002) DNA-dependent protein kinase suppresses double-strand break-induced and spontaneous homologous recombination. Proceedings of the National Academy of Sciences 99:6, pages 3758-3763.
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J. Pozueta-Romero. 2002. Fruit and Vegetable Biotechnology. Fruit and Vegetable Biotechnology 3 22 .
James E. Haber. 2002. Guide to Yeast Genetics and Molecular and Cell Biology - Part B. Guide to Yeast Genetics and Molecular and Cell Biology - Part B 141 164 .
Gregory B Gloor. (2001) Gene-targeting in Drosophila validated. Trends in Genetics 17:10, pages 549-551.
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Eliyahu Kraus, Wai-Ying Leung & James E. Haber. (2001) Break-induced replication: A review and an example in budding yeast. Proceedings of the National Academy of Sciences 98:15, pages 8255-8262.
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Brian D HarfeSue Jinks-Robertson. (2000) DNA MISMATCH REPAIR AND GENETIC INSTABILITY. Annual Review of Genetics 34:1, pages 359-399.
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Julang Li & Mark D Baker. (2000) Mechanisms Involved in Targeted Gene Replacement in Mammalian Cells. Genetics 156:2, pages 809-821.
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Kyle Yesland & William A. Fonzi. (2000) Allele-specific gene targeting in Candida albicans results from heterology between alleles The GenBank accession numbers for the sequences reported in this paper are AF247189 and AF247190 for PHR1-1 and PHR1-2, respectively.. Microbiology 146:9, pages 2097-2104.
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Brian D Harfe & Sue Jinks-Robertson. (2000) Mismatch repair proteins and mitotic genome stability. Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis 451:1-2, pages 151-167.
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James E Haber. (2000) Lucky breaks: analysis of recombination in Saccharomyces. Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis 451:1-2, pages 53-69.
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Ainsley Nicholson, Miyono Hendrix, Sue Jinks-Robertson & Gray F Crouse. (2000) Regulation of Mitotic Homeologous Recombination in Yeast: Functions of Mismatch Repair and Nucleotide Excision Repair Genes. Genetics 154:1, pages 133-146.
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Youhei Fujitani & Ichizo Kobayashi. (1999) Effect of DNA Sequence Divergence on Homologous Recombination as Analyzed by a Random-Walk Model. Genetics 153:4, pages 1973-1988.
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Jac A Nickoloff, Douglas B Sweetser, Jennifer A Clikeman, Guru Jot Khalsa & Sarah L Wheeler. (1999) Multiple Heterologies Increase Mitotic Double-Strand Break-Induced Allelic Gene Conversion Tract Lengths in Yeast. Genetics 153:2, pages 665-679.
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Tony A Kavanagh, Nguyen Duc Thanh, Nga Thi Lao, Noreen McGrath, Stefan O Peter, Eva M Horváth, Philip J Dix & Peter Medgyesy. (1999) Homeologous Plastid DNA Transformation in Tobacco Is Mediated by Multiple Recombination Events. Genetics 152:3, pages 1111-1122.
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Yohanns Bellaiche, Vladic Mogila & Norbert Perrimon. (1999) I-SceI Endonuclease, a New Tool for Studying DNA Double-Strand Break Repair Mechanisms in Drosophila. Genetics 152:3, pages 1037-1044.
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Frédéric Pâques & James E. Haber. (1999) Multiple Pathways of Recombination Induced by Double-Strand Breaks in Saccharomyces cerevisiae . Microbiology and Molecular Biology Reviews 63:2, pages 349-404.
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Tamas Lukacsovich & Alan S Waldman. (1999) Suppression of Intrachromosomal Gene Conversion in Mammalian Cells by Small Degrees of Sequence Divergence. Genetics 151:4, pages 1559-1568.
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Alan P.F. Bottoli, Katerina Kertesz-Chaloupkova´, Robert P. Boulianne, Jose´D. Granado, Markus Aebi & Ursula Ku¨es. (1999) Rapid isolation of genes from an indexed genomic library ofC. cinereus in a novelpab1+ cosmid. Journal of Microbiological Methods 35:2, pages 129-141.
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Allyson Holmes & James E. Haber. 1999. DNA Repair Protocols. DNA Repair Protocols 403 415 .
Silvina Maines, M Cristina Negritto, Xuli Wu, Glenn M Manthey & Adam M Bailis. (1998) Novel Mutations in the RAD3 and SSL1 Genes Perturb Genome Stability by Stimulating Recombination Between Short Repeats in Saccharomyces cerevisiae. Genetics 150:3, pages 963-976.
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Carolyn B McGill, Susan L Holbeck & Jeffrey N Strathern. (1998) The Chromosome Bias of Misincorporations During Double-Strand Break Repair Is Not Altered in Mismatch Repair–Defective Strains of Saccharomyces cerevisiae. Genetics 148:4, pages 1525-1533.
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Stefanie André, Brian Seed, Josef Eberle, Winfried Schraut, Andreas Bültmann & Jürgen Haas. (1998) Increased Immune Response Elicited by DNA Vaccination with a Synthetic gp120 Sequence with Optimized Codon Usage. Journal of Virology 72:2, pages 1497-1503.
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Yi-shin Weng & Jac A Nickoloff. (1998) Evidence for Independent Mismatch Repair Processing on Opposite Sides of a Double-Strand Break in Saccharomyces cerevisiae. Genetics 148:1, pages 59-70.
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B. Papadopoulou & C. Dumas. (1997) Parameters controlling the rate of gene targeting frequency in the protozoan parasite Leishmania. Nucleic Acids Research 25:21, pages 4278-4286.
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Abhijit Datta, Miyono Hendrix, Marc Lipsitch & Sue Jinks-Robertson. (1997) Dual roles for DNA sequence identity and the mismatch repair system in the regulation of mitotic crossing-over in yeast. Proceedings of the National Academy of Sciences 94:18, pages 9757-9762.
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W.-Y. Leung, A. Malkova & J. E. Haber. (1997) Gene targeting by linear duplex DNA frequently occurs by assimilation of a single strand that is subject to preferential mismatch correction. Proceedings of the National Academy of Sciences 94:13, pages 6851-6856.
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