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Molecular and Cellular Biology Volume 34, 2014 - Issue 8
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Article

A Saccharomyces cerevisiae RNase H2 Interaction Network Functions To Suppress Genome Instability

Stephanie Allen-Solteroa Ludwig Institute for Cancer Research, University of California School of Medicine, San Diego, La Jolla, California, USA;b Department of Medicine, University of California School of Medicine, San Diego, La Jolla, California, USA;c Department of Cellular and Molecular Medicine, University of California School of Medicine, San Diego, La Jolla, California, USA
,
Sandra L. Martineza Ludwig Institute for Cancer Research, University of California School of Medicine, San Diego, La Jolla, California, USA
,
Christopher D. Putnama Ludwig Institute for Cancer Research, University of California School of Medicine, San Diego, La Jolla, California, USA;b Department of Medicine, University of California School of Medicine, San Diego, La Jolla, California, USA
&
Richard D. Kolodnera Ludwig Institute for Cancer Research, University of California School of Medicine, San Diego, La Jolla, California, USA;b Department of Medicine, University of California School of Medicine, San Diego, La Jolla, California, USA;c Department of Cellular and Molecular Medicine, University of California School of Medicine, San Diego, La Jolla, California, USA;d Moores-UCSD Cancer Center, University of California School of Medicine, San Diego, La Jolla, California, USA;e Institute of Genomic Medicine, University of California School of Medicine, San Diego, La Jolla, California, USACorrespondence[email protected]
Pages 1521-1534 | Received 25 Jul 2013, Accepted 04 Feb 2014, Published online: 20 Mar 2023

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Zhi-Xiong Zhou, Jessica S. Williams, Scott A. Lujan & Thomas A. Kunkel. (2021) Ribonucleotide incorporation into DNA during DNA replication and its consequences. Critical Reviews in Biochemistry and Molecular Biology 56:1, pages 109-124.
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Belén Gómez-González, Sonia Barroso, Emilia Herrera-Moyano & Andrés Aguilera. (2020) Spontaneous DNA-RNA hybrids: differential impacts throughout the cell cycle. Cell Cycle 19:5, pages 525-531.
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Hengyao Niu, Catherine J. Potenski, Anastasiya Epshtein, Patrick Sung & Hannah L. Klein. (2016) Roles of DNA helicases and Exo1 in the avoidance of mutations induced by Top1-mediated cleavage at ribonucleotides in DNA. Cell Cycle 15:3, pages 331-336.
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Scott A. Lujan, Jessica S. Williams & Thomas A. Kunkel. (2016) Eukaryotic genome instability in light of asymmetric DNA replication. Critical Reviews in Biochemistry and Molecular Biology 51:1, pages 43-52.
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Jeremy W. Schroeder, Justin R. Randall, Lindsay A. Matthews & Lyle A. Simmons. (2015) Ribonucleotides in bacterial DNA. Critical Reviews in Biochemistry and Molecular Biology 50:3, pages 181-193.
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Jessica S. Williams, Jessica L. Wojtaszek, Denise C. Appel, Juno Krahn, Bret D. Wallace, Evan Walsh, Thomas A. Kunkel & R. Scott Williams. (2022) Molecular basis for processing of topoisomerase 1-triggered DNA damage by Apn2/APE2. Cell Reports 41:1, pages 111448.
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Jessica S. WilliamsThomas A. Kunkel. (2022) Ribonucleotide Incorporation by Eukaryotic B-Family Replicases and Its Implications for Genome Stability. Annual Review of Biochemistry 91:1, pages 133-155.
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Menattallah Elserafy, Iman El-Shiekh, Dalia Fleifel, Reham Atteya, Abdelrahman AlOkda, Mohamed M Abdrabbou, Mostafa Nasr & Sherif F El-Khamisy. (2021) A role for Rad5 in ribonucleoside monophosphate (rNMP) tolerance. Life Science Alliance 4:10, pages e202000966.
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Christopher D. Putnam. (2021) Strand discrimination in DNA mismatch repair. DNA Repair 105, pages 103161.
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Rahel Polaczek, Peter Schürmann, Lisa-Marie Speith, Robert Geffers, Matthias Dürst, Peter Hillemanns, Tjoung-Won Park-Simon, Clemens Liebrich & Thilo Dörk. (2020) Germline variation of Ribonuclease H2 genes in ovarian cancer patients. Journal of Ovarian Research 13:1.
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Susana M Cerritelli, Jaime Iranzo, Sushma Sharma, Andrei Chabes, Robert J Crouch, David Tollervey & Aziz El Hage. (2020) High density of unrepaired genomic ribonucleotides leads to Topoisomerase 1-mediated severe growth defects in absence of ribonucleotide reductase. Nucleic Acids Research 48:8, pages 4274-4297.
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Vanessa Kellner & Brian Luke. (2019) Molecular and physiological consequences of faulty eukaryotic ribonucleotide excision repair. The EMBO Journal 39:3.
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Susana M. Cerritelli & Robert J. Crouch. (2019) RNase H2-RED carpets the path to eukaryotic RNase H2 functions. DNA Repair 84, pages 102736.
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Jessica S. Williams, Scott A. Lujan, Zhi-Xiong Zhou, Adam B. Burkholder, Alan B. Clark, David C. Fargo & Thomas A. Kunkel. (2019) Genome-wide mutagenesis resulting from topoisomerase 1-processing of unrepaired ribonucleotides in DNA. DNA Repair 84, pages 102641.
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Anjana SrivatsanBinzhong LiDafne N. SanchezSteven B. SomachVandeclecio L. da SilvaSandro J. de SouzaChristopher D. PutnamRichard D. Kolodner. (2019) Essential Saccharomyces cerevisiae genome instability suppressing genes identify potential human tumor suppressors . Proceedings of the National Academy of Sciences 116:35, pages 17377-17382.
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Nayun Kim. (2019) The Interplay between G-quadruplex and Transcription. Current Medicinal Chemistry 26:16, pages 2898-2917.
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Vivian S. Park & Zachary F. Pursell. (2019) POLE proofreading defects: Contributions to mutagenesis and cancer. DNA Repair 76, pages 50-59.
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Norah Owiti, Kasey Stokdyk & Nayun Kim. (2018) The etiology of uracil residues in the Saccharomyces cerevisiae genomic DNA. Current Genetics 65:2, pages 393-399.
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Michele Giannattasio & Dana Branzei. (2019) DNA Replication Through Strand Displacement During Lagging Strand DNA Synthesis in Saccharomyces cerevisiae. Genes 10:2, pages 167.
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Jang-Eun Cho & Sue Jinks-Robertson. 2018. DNA Topoisomerases. DNA Topoisomerases 21 45 .
Juan Lafuente-Barquero, Sarah Luke-Glaser, Marco Graf, Sonia Silva, Belén Gómez-González, Arianna Lockhart, Michael Lisby, Andrés Aguilera & Brian Luke. (2017) The Smc5/6 complex regulates the yeast Mph1 helicase at RNA-DNA hybrid-mediated DNA damage. PLOS Genetics 13:12, pages e1007136.
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Nayun Kim & Sue Jinks-Robertson. (2017) The Top1 paradox: Friend and foe of the eukaryotic genome. DNA Repair 56, pages 33-41.
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Hannah L. Klein. (2017) Genome instabilities arising from ribonucleotides in DNA. DNA Repair 56, pages 26-32.
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Ifat Lev, Keren Shemesh, Marina Volpe, Soumitra Sau, Nelly Levinton, Maya Molco, Shivani Singh, Batia Liefshitz, Shay Ben Aroya & Martin Kupiec. (2017) A New Method, “Reverse Yeast Two-Hybrid Array” (RYTHA), Identifies Mutants that Dissociate the Physical Interaction Between Elg1 and Slx5. Genetics 206:3, pages 1683-1697.
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Christopher D Putnam & Richard D Kolodner. (2017) Pathways and Mechanisms that Prevent Genome Instability in Saccharomyces cerevisiae . Genetics 206:3, pages 1187-1225.
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Peter M.J. BurgersThomas A. Kunkel. (2017) Eukaryotic DNA Replication Fork. Annual Review of Biochemistry 86:1, pages 417-438.
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Jochen GenschelLyudmila Y. Kadyrova, Ravi R. IyerBasanta K. Dahal, Farid A. Kadyrov & Paul Modrich. (2017) Interaction of proliferating cell nuclear antigen with PMS2 is required for MutLα activation and function in mismatch repair. Proceedings of the National Academy of Sciences 114:19, pages 4930-4935.
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Jessica S. Williams, Daniel B. Gehle & Thomas A. Kunkel. (2017) The role of RNase H2 in processing ribonucleotides incorporated during DNA replication. DNA Repair 53, pages 52-58.
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Deborah A. Cornelio, Hailey N.C. Sedam, Jessica A. Ferrarezi, Nadia M.V. Sampaio & Juan Lucas Argueso. (2017) Both R-loop removal and ribonucleotide excision repair activities of RNase H2 contribute substantially to chromosome stability. DNA Repair 52, pages 110-114.
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Shar‐yin N Huang, Jessica S Williams, Mercedes E Arana, Thomas A Kunkel & Yves Pommier. (2017) Topoisomerase I‐mediated cleavage at unrepaired ribonucleotides generates DNA double‐strand breaks. The EMBO Journal 36:3, pages 361-373.
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Jie Peng & Wenyi Feng. (2016) Incision of damaged DNA in the presence of an impaired Smc5/6 complex imperils genome stability. Nucleic Acids Research, pages gkw720.
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Jessica S. Williams, Scott A. Lujan & Thomas A. Kunkel. (2016) Processing ribonucleotides incorporated during eukaryotic DNA replication. Nature Reviews Molecular Cell Biology 17:6, pages 350-363.
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Shaolong Feng & Zhaohui Cao. (2016) Is the role of human RNase H2 restricted to its enzyme activity?. Progress in Biophysics and Molecular Biology 121:1, pages 66-73.
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Richard D. Kolodner. (2016) A personal historical view of DNA mismatch repair with an emphasis on eukaryotic DNA mismatch repair. DNA Repair 38, pages 3-13.
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Nicholas R. Pannunzio & Michael R. Lieber. (2016) Dissecting the Roles of Divergent and Convergent Transcription in Chromosome Instability. Cell Reports 14:5, pages 1025-1031.
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Puja Yadav, Norah Owiti & Nayun Kim. (2016) The role of topoisomerase I in suppressing genome instability associated with a highly transcribed guanine-rich sequence is not restricted to preventing RNA:DNA hybrid accumulation. Nucleic Acids Research 44:2, pages 718-729.
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Richard Fishel & Jong-Bong Lee. 2016. DNA Replication, Recombination, and Repair. DNA Replication, Recombination, and Repair 305 339 .
Gloria X. Reyes, Tobias T. Schmidt, Richard D. Kolodner & Hans Hombauer. (2015) New insights into the mechanism of DNA mismatch repair. Chromosoma 124:4, pages 443-462.
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Richard Fishel. (2015) Mismatch Repair. Journal of Biological Chemistry 290:44, pages 26395-26403.
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James Ding, Martin S Taylor, Andrew P Jackson & Martin A M Reijns. (2015) Genome-wide mapping of embedded ribonucleotides and other noncanonical nucleotides using emRiboSeq and EndoSeq. Nature Protocols 10:9, pages 1433-1444.
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Anders R Clausen, Scott A Lujan, Adam B Burkholder, Clinton D Orebaugh, Jessica S Williams, Maryam F Clausen, Ewa P Malc, Piotr A Mieczkowski, David C Fargo, Duncan J Smith & Thomas A Kunkel. (2015) Tracking replication enzymology in vivo by genome-wide mapping of ribonucleotide incorporation. Nature Structural & Molecular Biology 22:3, pages 185-191.
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Puja Yadav, Victoria Harcy, Juan Lucas Argueso, Margaret Dominska, Sue Jinks-Robertson & Nayun Kim. (2014) Topoisomerase I Plays a Critical Role in Suppressing Genome Instability at a Highly Transcribed G-Quadruplex-Forming Sequence. PLoS Genetics 10:12, pages e1004839.
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Catherine J. Potenski & Hannah L. Klein. (2014) How the misincorporation of ribonucleotides into genomic DNA can be both harmful and helpful to cells. Nucleic Acids Research 42:16, pages 10226-10234.
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Jessica S. Williams & Thomas A. Kunkel. (2014) Ribonucleotides in DNA: Origins, repair and consequences. DNA Repair 19, pages 27-37.
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Erin E. Henninger & Zachary F. Pursell. (2014) DNA polymerase ε and its roles in genome stability. IUBMB Life 66:5, pages 339-351.
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