Haber Lab Publications

2010

Carlton, Peter M., et al. “Fast Live Simultaneous Multiwavelength Four-Dimensional Optical Microscopy.” Proceedings of the National Academy of Sciences of the United States of America, vol. 107, no. 37, Sept. 2010, pp. 16016–22. PubMed, https://doi.org/10.1073/pnas.1004037107.

Dotiwala, Farokh, et al. “Mad2 Prolongs DNA Damage Checkpoint Arrest Caused by a Double-Strand Break via a Centromere-Dependent Mechanism.” Current Biology: CB, vol. 20, no. 4, Feb. 2010, pp. 328–32. PubMed, https://doi.org/10.1016/j.cub.2009.12.033.

Hicks, Wade M., et al. “Increased Mutagenesis and Unique Mutation Signature Associated with Mitotic Gene Conversion.” Science (New York, N.Y.), vol. 329, no. 5987, July 2010, pp. 82–85. PubMed, https://doi.org/10.1126/science.1191125.

Lydeard, John R., Zachary Lipkin-Moore, Yi-Jun Sheu, et al. “Break-Induced Replication Requires All Essential DNA Replication Factors except Those Specific for Pre-RC Assembly.” Genes & Development, vol. 24, no. 11, June 2010, pp. 1133–44. PubMed, https://doi.org/10.1101/gad.1922610.

Lydeard, John R., Zachary Lipkin-Moore, Suvi Jain, et al. “Sgs1 and Exo1 Redundantly Inhibit Break-Induced Replication and de Novo Telomere Addition at Broken Chromosome Ends.” PLoS Genetics, vol. 6, no. 5, May 2010, p. e1000973. PubMed, https://doi.org/10.1371/journal.pgen.1000973.

Saponaro, Marco, et al. “Cdk1 Targets Srs2 to Complete Synthesis-Dependent Strand Annealing and to Promote Recombinational Repair.” PLoS Genetics, vol. 6, no. 2, Feb. 2010, p. e1000858. PubMed, https://doi.org/10.1371/journal.pgen.1000858.

Toh, Geraldine W. L., et al. “Mec1/Tel1-Dependent Phosphorylation of Slx4 Stimulates Rad1-Rad10-Dependent Cleavage of Non-Homologous DNA Tails.” DNA Repair, vol. 9, no. 6, June 2010, pp. 718–26. PubMed, https://doi.org/10.1016/j.dnarep.2010.02.013.

2009

Doksani, Ylli, et al. “Replicon Dynamics, Dormant Origin Firing, and Terminal Fork Integrity after Double-Strand Break Formation.” Cell, vol. 137, no. 2, Apr. 2009, pp. 247–58. PubMed, https://doi.org/10.1016/j.cell.2009.02.016.

Jain, Suvi, et al. “A Recombination Execution Checkpoint Regulates the Choice of Homologous Recombination Pathway during DNA Double-Strand Break Repair.” Genes & Development, vol. 23, no. 3, Feb. 2009, pp. 291–303. PubMed, https://doi.org/10.1101/gad.1751209.

Kim, Jung-Ae, and James E. Haber. “Chromatin Assembly Factors Asf1 and CAF-1 Have Overlapping Roles in Deactivating the DNA Damage Checkpoint When DNA Repair Is Complete.” Proceedings of the National Academy of Sciences of the United States of America, vol. 106, no. 4, Jan. 2009, pp. 1151–56. PubMed, https://doi.org/10.1073/pnas.0812578106.

Prakash, Rohit, et al. “Yeast Mph1 Helicase Dissociates Rad51-Made D-Loops: Implications for Crossover Control in Mitotic Recombination.” Genes & Development, vol. 23, no. 1, Jan. 2009, pp. 67–79. PubMed, https://doi.org/10.1101/gad.1737809.

2008

Coïc, Eric, et al. “Mechanisms of Rad52-Independent Spontaneous and UV-Induced Mitotic Recombination in Saccharomyces Cerevisiae.” Genetics, vol. 179, no. 1, May 2008, pp. 199–211. PubMed, https://doi.org/10.1534/genetics.108.087189.

Haber, James E. “Alternative Endings.” Proceedings of the National Academy of Sciences of the United States of America, vol. 105, no. 2, Jan. 2008, pp. 405–06. PubMed, https://doi.org/10.1073/pnas.0711334105.

Jazayeri, Ali, et al. “Mre11-Rad50-Nbs1-Dependent Processing of DNA Breaks Generates Oligonucleotides That Stimulate ATM Activity.” The EMBO Journal, vol. 27, no. 14, July 2008, pp. 1953–62. PubMed, https://doi.org/10.1038/emboj.2008.128.

Kim, Hee-Sook, et al. “Functional Interactions between Sae2 and the Mre11 Complex.” Genetics, vol. 178, no. 2, Feb. 2008, pp. 711–23. PubMed, https://doi.org/10.1534/genetics.107.081331.

Lazzaro, Federico, et al. “Histone Methyltransferase Dot1 and Rad9 Inhibit Single-Stranded DNA Accumulation at DSBs and Uncapped Telomeres.” The EMBO Journal, vol. 27, no. 10, May 2008, pp. 1502–12. PubMed, https://doi.org/10.1038/emboj.2008.81.

2007

Cortés-Ledesma, Felipe, et al. “SMC Proteins, New Players in the Maintenance of Genomic Stability.” Cell Cycle (Georgetown, Tex.), vol. 6, no. 8, Apr. 2007, pp. 914–18. PubMed, https://doi.org/10.4161/cc.6.8.4107.

De Koning, Leanne, et al. “Histone Chaperones: An Escort Network Regulating Histone Traffic.” Nature Structural & Molecular Biology, vol. 14, no. 11, Nov. 2007, pp. 997–1007. PubMed, https://doi.org/10.1038/nsmb1318.

Dotiwala, Farokh, et al. “The Yeast DNA Damage Checkpoint Proteins Control a Cytoplasmic Response to DNA Damage.” Proceedings of the National Academy of Sciences of the United States of America, vol. 104, no. 27, July 2007, pp. 11358–63. PubMed, https://doi.org/10.1073/pnas.0609636104.

Flott, Sonja, et al. “Phosphorylation of Slx4 by Mec1 and Tel1 Regulates the Single-Strand Annealing Mode of DNA Repair in Budding Yeast.” Molecular and Cellular Biology, vol. 27, no. 18, Sept. 2007, pp. 6433–45. PubMed, https://doi.org/10.1128/MCB.00135-07.

Kim, Jung-Ae, et al. “Heterochromatin Is Refractory to Gamma-H2AX Modification in Yeast and Mammals.” The Journal of Cell Biology, vol. 178, no. 2, July 2007, pp. 209–18. PubMed, https://doi.org/10.1083/jcb.200612031.

Lydeard, John R., et al. “Break-Induced Replication and Telomerase-Independent Telomere Maintenance Require Pol32.” Nature, vol. 448, no. 7155, Aug. 2007, pp. 820–23. PubMed, https://doi.org/10.1038/nature06047.

Morrison, Ashby J., et al. “Mec1/Tel1 Phosphorylation of the INO80 Chromatin Remodeling Complex Influences DNA Damage Checkpoint Responses.” Cell, vol. 130, no. 3, Aug. 2007, pp. 499–511. PubMed, https://doi.org/10.1016/j.cell.2007.06.010.

Torres-Rosell, Jordi, et al. “Anaphase Onset before Complete DNA Replication with Intact Checkpoint Responses.” Science (New York, N.Y.), vol. 315, no. 5817, Mar. 2007, pp. 1411–15. PubMed, https://doi.org/10.1126/science.1134025.

2006

Coïc, Eric, et al. “Cell Cycle-Dependent Regulation of Saccharomyces Cerevisiae Donor Preference during Mating-Type Switching by SBF (Swi4/Swi6) and Fkh1.” Molecular and Cellular Biology, vol. 26, no. 14, July 2006, pp. 5470–80. PubMed, https://doi.org/10.1128/MCB.02443-05.

De Piccoli, Giacomo, et al. “Smc5-Smc6 Mediate DNA Double-Strand-Break Repair by Promoting Sister-Chromatid Recombination.” Nature Cell Biology, vol. 8, no. 9, Sept. 2006, pp. 1032–34. PubMed, https://doi.org/10.1038/ncb1466.

Haber, James E. “Chromosome Breakage and Repair.” Genetics, vol. 173, no. 3, July 2006, pp. 1181–85. PubMed, https://doi.org/10.1093/genetics/173.3.1181.

Haber, James E. “Comment on ‘Cell Type Regulates Selective Segregation of Mouse Chromosome 7 DNA Strands in Mitosis.’” Science (New York, N.Y.), vol. 313, no. 5790, Aug. 2006, pp. 1045; author reply 1045. PubMed, https://doi.org/10.1126/science.313.5790.1045a.

Haber, James E. “Transpositions and Translocations Induced by Site-Specific Double-Strand Breaks in Budding Yeast.” DNA Repair, vol. 5, no. 9–10, Sept. 2006, pp. 998–1009. PubMed, https://doi.org/10.1016/j.dnarep.2006.05.025.

Haber, James E., and Michelle Debatisse. “Gene Amplification: Yeast Takes a Turn.” Cell, vol. 125, no. 7, June 2006, pp. 1237–40. PubMed, https://doi.org/10.1016/j.cell.2006.06.012.

Harrison, Jacob C., and James E. Haber. “Surviving the Breakup: The DNA Damage Checkpoint.” Annual Review of Genetics, vol. 40, 2006, pp. 209–35. PubMed, https://doi.org/10.1146/annurev.genet.40.051206.105231.

Ira, Grzegorz, et al. “Conservative Inheritance of Newly Synthesized DNA in Double-Strand Break-Induced Gene Conversion.” Molecular and Cellular Biology, vol. 26, no. 24, Dec. 2006, pp. 9424–29. PubMed, https://doi.org/10.1128/MCB.01654-06.

McEachern, Michael J., and James E. Haber. “Break-Induced Replication and Recombinational Telomere Elongation in Yeast.” Annual Review of Biochemistry, vol. 75, 2006, pp. 111–35. PubMed, https://doi.org/10.1146/annurev.biochem.74.082803.133234.

Sugawara, Neal, and James E. Haber. “Repair of DNA Double Strand Breaks: In Vivo Biochemistry.” Methods in Enzymology, vol. 408, 2006, pp. 416–29. PubMed, https://doi.org/10.1016/S0076-6879(06)08026-8.

Valencia-Burton, Maria, et al. “Different Mating-Type-Regulated Genes Affect the DNA Repair Defects of Saccharomyces RAD51, RAD52 and RAD55 Mutants.” Genetics, vol. 174, no. 1, Sept. 2006, pp. 41–55. PubMed, https://doi.org/10.1534/genetics.106.058685.

2005

Clatworthy, Anne E., et al. “The MRE11-RAD50-XRS2 Complex, in Addition to Other Non-Homologous End-Joining Factors, Is Required for V(D)J Joining in Yeast.” The Journal of Biological Chemistry, vol. 280, no. 21, May 2005, pp. 20247–52. PubMed, https://doi.org/10.1074/jbc.M500126200.

Corda, Yves, et al. “Inactivation of Ku-Mediated End Joining Suppresses Mec1Delta Lethality by Depleting the Ribonucleotide Reductase Inhibitor Sml1 through a Pathway Controlled by Tel1 Kinase and the Mre11 Complex.” Molecular and Cellular Biology, vol. 25, no. 23, Dec. 2005, pp. 10652–64. PubMed, https://doi.org/10.1128/MCB.25.23.10652-10664.2005.

Haber, James E. “The 2005 Genetics Society of America Medal. Steven J. Elledge.” Genetics, vol. 169, no. 2, Feb. 2005, pp. 506–07. PubMed, https://doi.org/10.1093/genetics/169.2.506.

Liberi, Giordano, et al. “Rad51-Dependent DNA Structures Accumulate at Damaged Replication Forks in Sgs1 Mutants Defective in the Yeast Ortholog of BLM RecQ Helicase.” Genes & Development, vol. 19, no. 3, Feb. 2005, pp. 339–50. PubMed, https://doi.org/10.1101/gad.322605.

Malkova, Anna, et al. “RAD51-Dependent Break-Induced Replication Differs in Kinetics and Checkpoint Responses from RAD51-Mediated Gene Conversion.” Molecular and Cellular Biology, vol. 25, no. 3, Feb. 2005, pp. 933–44. PubMed, https://doi.org/10.1128/MCB.25.3.933-944.2005.

2004

Bressan, Debra A., et al. “Mating Type-Dependent Constraints on the Mobility of the Left Arm of Yeast Chromosome III.” The Journal of Cell Biology, vol. 164, no. 3, Feb. 2004, pp. 361–71. PubMed, https://doi.org/10.1083/jcb.200311063.

Haber, James E., et al. “Repairing a Double-Strand Chromosome Break by Homologous Recombination: Revisiting Robin Holliday’s Model.” Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences, vol. 359, no. 1441, Jan. 2004, pp. 79–86. PubMed, https://doi.org/10.1098/rstb.2003.1367.

Haber, James E. “Telomeres Thrown for a Loop.” Molecular Cell, vol. 16, no. 4, Nov. 2004, pp. 502–03. PubMed, https://doi.org/10.1016/j.molcel.2004.11.006.

Ira, Grzegorz, et al. “DNA End Resection, Homologous Recombination and DNA Damage Checkpoint Activation Require CDK1.” Nature, vol. 431, no. 7011, Oct. 2004, pp. 1011–17. PubMed, https://doi.org/10.1038/nature02964.

Kaye, Julia A., et al. “DNA Breaks Promote Genomic Instability by Impeding Proper Chromosome Segregation.” Current Biology: CB, vol. 14, no. 23, Dec. 2004, pp. 2096–106. PubMed, https://doi.org/10.1016/j.cub.2004.10.051.

Malkova, Anna, et al. “Gene Conversion and Crossing over along the 405-Kb Left Arm of Saccharomyces Cerevisiae Chromosome VII.” Genetics, vol. 168, no. 1, Sept. 2004, pp. 49–63. PubMed, https://doi.org/10.1534/genetics.104.027961.

Miyazaki, Toshiko, et al. “In Vivo Assembly and Disassembly of Rad51 and Rad52 Complexes during Double-Strand Break Repair.” The EMBO Journal, vol. 23, no. 4, Feb. 2004, pp. 939–49. PubMed, https://doi.org/10.1038/sj.emboj.7600091.

Morrison, Ashby J., et al. “INO80 and Gamma-H2AX Interaction Links ATP-Dependent Chromatin Remodeling to DNA Damage Repair.” Cell, vol. 119, no. 6, Dec. 2004, pp. 767–75. PubMed, https://doi.org/10.1016/j.cell.2004.11.037.

Shroff, Robert, et al. “Distribution and Dynamics of Chromatin Modification Induced by a Defined DNA Double-Strand Break.” Current Biology: CB, vol. 14, no. 19, Oct. 2004, pp. 1703–11. PubMed, https://doi.org/10.1016/j.cub.2004.09.047.

Sugawara, Neal, et al. “Heteroduplex Rejection during Single-Strand Annealing Requires Sgs1 Helicase and Mismatch Repair Proteins Msh2 and Msh6 but Not Pms1.” Proceedings of the National Academy of Sciences of the United States of America, vol. 101, no. 25, June 2004, pp. 9315–20. PubMed, https://doi.org/10.1073/pnas.0305749101.

Unal, Elçin, et al. “DNA Damage Response Pathway Uses Histone Modification to Assemble a Double-Strand Break-Specific Cohesin Domain.” Molecular Cell, vol. 16, no. 6, Dec. 2004, pp. 991–1002. PubMed, https://doi.org/10.1016/j.molcel.2004.11.027.

Wang, Xuan, et al. “Role of DNA Replication Proteins in Double-Strand Break-Induced Recombination in Saccharomyces Cerevisiae.” Molecular and Cellular Biology, vol. 24, no. 16, Aug. 2004, pp. 6891–99. PubMed, https://doi.org/10.1128/MCB.24.16.6891-6899.2004.

Wang, Xuan, and James E. Haber. “Role of Saccharomyces Single-Stranded DNA-Binding Protein RPA in the Strand Invasion Step of Double-Strand Break Repair.” PLoS Biology, vol. 2, no. 1, Jan. 2004, p. E21. PubMed, https://doi.org/10.1371/journal.pbio.0020021.

Yu, Jianhua, et al. “Microhomology-Dependent End Joining and Repair of Transposon-Induced DNA Hairpins by Host Factors in Saccharomyces Cerevisiae.” Molecular and Cellular Biology, vol. 24, no. 3, Feb. 2004, pp. 1351–64. PubMed, https://doi.org/10.1128/MCB.24.3.1351-1364.2004.

2003

Clatworthy, Anne E., et al. “V(D)J Recombination and RAG-Mediated Transposition in Yeast.” Molecular Cell, vol. 12, no. 2, Aug. 2003, pp. 489–99. PubMed, https://doi.org/10.1016/s1097-2765(03)00305-8.

Haber, James E. “Aging: The Sins of the Parents.” Current Biology: CB, vol. 13, no. 21, Oct. 2003, pp. R843-845. PubMed, https://doi.org/10.1016/j.cub.2003.10.018.

Ira, Grzegorz, et al. “Srs2 and Sgs1-Top3 Suppress Crossovers during Double-Strand Break Repair in Yeast.” Cell, vol. 115, no. 4, Nov. 2003, pp. 401–11. PubMed, https://doi.org/10.1016/s0092-8674(03)00886-9.

Lee, Sang Eun, et al. “Yeast Rad52 and Rad51 Recombination Proteins Define a Second Pathway of DNA Damage Assessment in Response to a Single Double-Strand Break.” Molecular and Cellular Biology, vol. 23, no. 23, Dec. 2003, pp. 8913–23. PubMed, https://doi.org/10.1128/MCB.23.23.8913-8923.2003.

Leroy, Christophe, et al. “PP2C Phosphatases Ptc2 and Ptc3 Are Required for DNA Checkpoint Inactivation after a Double-Strand Break.” Molecular Cell, vol. 11, no. 3, Mar. 2003, pp. 827–35. PubMed, https://doi.org/10.1016/s1097-2765(03)00058-3.

Ma, Jia-Lin, et al. “Yeast Mre11 and Rad1 Proteins Define a Ku-Independent Mechanism to Repair Double-Strand Breaks Lacking Overlapping End Sequences.” Molecular and Cellular Biology, vol. 23, no. 23, Dec. 2003, pp. 8820–28. PubMed, https://doi.org/10.1128/MCB.23.23.8820-8828.2003.

Sugawara, Neal, et al. “In Vivo Roles of Rad52, Rad54, and Rad55 Proteins in Rad51-Mediated Recombination.” Molecular Cell, vol. 12, no. 1, July 2003, pp. 209–19. PubMed, https://doi.org/10.1016/s1097-2765(03)00269-7.

2002

Haber, James E. “Uses and Abuses of HO Endonuclease.” Methods in Enzymology, vol. 350, 2002, pp. 141–64. PubMed, https://doi.org/10.1016/s0076-6879(02)50961-7.

Ira, Grzegorz, and James E. Haber. “Characterization of RAD51-Independent Break-Induced Replication That Acts Preferentially with Short Homologous Sequences.” Molecular and Cellular Biology, vol. 22, no. 18, Sept. 2002, pp. 6384–92. PubMed, https://doi.org/10.1128/MCB.22.18.6384-6392.2002.

Lee, Sang Eun, et al. “Complementation between N-Terminal Saccharomyces Cerevisiae Mre11 Alleles in DNA Repair and Telomere Length Maintenance.” DNA Repair, vol. 1, no. 1, Jan. 2002, pp. 27–40. PubMed, https://doi.org/10.1016/s1568-7864(01)00003-9.

Sun, Kaiming, et al. “Saccharomyces Forkhead Protein Fkh1 Regulates Donor Preference during Mating-Type Switching through the Recombination Enhancer.” Genes & Development, vol. 16, no. 16, Aug. 2002, pp. 2085–96. PubMed, https://doi.org/10.1101/gad.994902.

Vaze, Moreshwar B., et al. “Recovery from Checkpoint-Mediated Arrest after Repair of a Double-Strand Break Requires Srs2 Helicase.” Molecular Cell, vol. 10, no. 2, Aug. 2002, pp. 373–85. PubMed, https://doi.org/10.1016/s1097-2765(02)00593-2.

2001

Haber, J. E. “Hypermutation: Give Us a Break.” Nature Immunology, vol. 2, no. 10, Oct. 2001, pp. 902–03. PubMed, https://doi.org/10.1038/ni1001-902.

Haber, J. E., and W. D. Heyer. “The Fuss about Mus81.” Cell, vol. 107, no. 5, Nov. 2001, pp. 551–54. PubMed, https://doi.org/10.1016/s0092-8674(01)00593-1.

Kraus, E., et al. “Break-Induced Replication: A Review and an Example in Budding Yeast.” Proceedings of the National Academy of Sciences of the United States of America, vol. 98, no. 15, July 2001, pp. 8255–62. PubMed, https://doi.org/10.1073/pnas.151008198.

Lee, S. E., et al. “The Saccharomyces Recombination Protein Tid1p Is Required for Adaptation from G2/M Arrest Induced by a Double-Strand Break.” Current Biology: CB, vol. 11, no. 13, July 2001, pp. 1053–57. PubMed, https://doi.org/10.1016/s0960-9822(01)00296-2.

Malkova, A., et al. “RAD51-Independent Break-Induced Replication to Repair a Broken Chromosome Depends on a Distant Enhancer Site.” Genes & Development, vol. 15, no. 9, May 2001, pp. 1055–60. PubMed, https://doi.org/10.1101/gad.875901.

Pâques, F., et al. “Expansions and Contractions in 36-Bp Minisatellites by Gene Conversion in Yeast.” Genetics, vol. 158, no. 1, May 2001, pp. 155–66. PubMed, https://doi.org/10.1093/genetics/158.1.155.

Pellicioli, A., et al. “Regulation of Saccharomyces Rad53 Checkpoint Kinase during Adaptation from DNA Damage-Induced G2/M Arrest.” Molecular Cell, vol. 7, no. 2, Feb. 2001, pp. 293–300. PubMed, https://doi.org/10.1016/s1097-2765(01)00177-0.

Signon, L., et al. “Genetic Requirements for RAD51- and RAD54-Independent Break-Induced Replication Repair of a Chromosomal Double-Strand Break.” Molecular and Cellular Biology, vol. 21, no. 6, Mar. 2001, pp. 2048–56. PubMed, https://doi.org/10.1128/MCB.21.6.2048-2056.2001.

Valencia, M., et al. “NEJ1 Controls Non-Homologous End Joining in Saccharomyces Cerevisiae.” Nature, vol. 414, no. 6864, Dec. 2001, pp. 666–69. PubMed, https://doi.org/10.1038/414666a.

Zhou, Z., et al. “A Saccharomyces Servazzii Clone Homologous to Saccharomyces Cerevisiae Chromosome III Spanning KAR4, ARS 304 and SPB1 Lacks the Recombination Enhancer but Contains an Unknown ORF.” Yeast (Chichester, England), vol. 18, no. 9, June 2001, pp. 789–95. PubMed, https://doi.org/10.1002/yea.724.

Publications from 1991 to 2000.  <-Back--Next->