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    Richard Kolodner

    TitleProfessor
    SchoolUniversity of California, San Diego
    DepartmentCellular and Molecular Medicine
    Address9500 Gilman Drive #0669
    CA La Jolla 92093
    Phone858-534-7804
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      Collapse Overview 
      Collapse Overview
      Our laboratory is studying the genetic and biochemical mechanisms of genetic recombination, DNA repair and suppression of spontaneous mutations primarily using Saccharomyces cerevisiae as a model system. Work in S. cerevisiae falls in two interrelated areas - 1) the analysis of the proteins and genes that function in DNA mismatch repair; and 2) elucidation of the pathways that prevent translocations and other types of gross chromosomal rearrangements, and the analysis of the proteins that function in these pathways. The Kolodner lab also has research interests in the area of investigating the genetics of cancer susceptibility and development that follows on previous studies showing that a common cancer susceptibility syndrome, Lynch Syndrome (hereditary non-polyposis colorectal cancer), is due to inherited defects in DNA mismatch repair genes. This work is focused on understanding whether genes that prevent genome instability act as tumor suppressor genes in humans and whether defects in these genes can be therapeutically targeted.

      Research Focus Areas:



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      SHARED MOLECULAR BIOLOGY FACILITY EQUIPMENT
      NIH/NCRR S10RR004895Mar 13, 1989 - Mar 12, 1990
      Role: Principal Investigator
      Enzymology of Mismatch Repair in Yeast
      NIH/NIGMS R01GM050006Jul 1, 1988 - Nov 30, 2018
      Role: Principal Investigator
      ENZYMOLOGY OF MISMATCH REPAIR IN YEAST
      NIH/NHGRI R01HG000305Jul 1, 1988 - Jun 30, 1994
      Role: Principal Investigator
      ENZYMOLOGY OF MISMATCH REPAIR IN YEAST
      NIH/NIGMS R01GM040554Jul 1, 1988 - Jun 30, 1993
      Role: Principal Investigator
      ENZYMATIC MECHANISMS OF GENETIC RECOMBINATION IN YEAST
      NIH/NIGMS R01GM029383Jul 1, 1983 - Jun 30, 1996
      Role: Principal Investigator
      Tumor Cell Biology Training Program
      NIH/NCI T32CA009361Jul 1, 1980 - Jun 30, 2016
      Role: Co-Principal Investigator
      Enzymatic Mechanisms of Genetic Recombination
      NIH/NIGMS R01GM026017Dec 1, 1978 - Mar 31, 2018
      Role: Principal Investigator
      ENZYMATIC MECHANISMS OF GENETIC RECOMBINATION
      NIH/NIGMS R37GM026017Dec 1, 1978 - Mar 31, 2002
      Role: Principal Investigator

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      Collapse Bibliographic 
      Collapse Publications
      Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
      List All   |   Timeline
      1. Putnam CD, Kolodner R. Pathways and Mechanisms that Prevent Genome Instability in Saccharomyces cerevisiae. Genetics. 2017 Jul; 206(3):1187-1225. PMID: 28684602.
        View in: PubMed
      2. Bowen N, Kolodner R. Reconstitution of Saccharomyces cerevisiae DNA polymerase e-dependent mismatch repair with purified proteins. Proc Natl Acad Sci U S A. 2017 Apr 04; 114(14):3607-3612. PMID: 28265089.
        View in: PubMed
      3. Breuss MW, Nguyen T, Srivatsan A, Leca I, Tian G, Fritz T, Hansen AH, Musaev D, McEvoy-Venneri J, James KN, Rosti RO, Scott E, Tan U, Kolodner R, Cowan NJ, Keays DA, Gleeson JG. Uner Tan syndrome caused by a homozygous TUBB2B mutation affecting microtubule stability. Hum Mol Genet. 2017 Jan 15; 26(2):258-269. PMID: 28013290.
        View in: PubMed
      4. Albuquerque CP, Wang G, Lee NS, Kolodner R, Putnam CD, Zhou H. Correction: Distinct SUMO Ligases Cooperate with Esc2 and Slx5 to Suppress Duplication-Mediated Genome Rearrangements. PLoS Genet. 2016 Aug; 12(8):e1006302. PMID: 27579875.
        View in: PubMed
      5. Putnam CD, Srivatsan A, Nene RV, Martinez SL, Clotfelter SP, Bell SN, Somach SB, de Souza JE, Fonseca AF, de Souza SJ, Kolodner R. A genetic network that suppresses genome rearrangements in Saccharomyces cerevisiae and contains defects in cancers. Nat Commun. 2016 Apr 13; 7:11256. PMID: 27071721; PMCID: PMC4833866.
      6. Kolodner R. A personal historical view of DNA mismatch repair with an emphasis on eukaryotic DNA mismatch repair. DNA Repair (Amst). 2016 Feb; 38:3-13. PMID: 26698650; PMCID: PMC4740188 [Available on 02/01/17].
      7. Smith CE, Bowen N, Graham WJ, Goellner EM, Srivatsan A, Kolodner R. Activation of Saccharomyces cerevisiae Mlh1-Pms1 Endonuclease in a Reconstituted Mismatch Repair System. J Biol Chem. 2015 Aug 28; 290(35):21580-90. PMID: 26170454; PMCID: PMC4571882.
      8. Goellner EM, Putnam CD, Kolodner R. Exonuclease 1-dependent and independent mismatch repair. DNA Repair (Amst). 2015 Aug; 32:24-32. PMID: 25956862; PMCID: PMC4522362.
      9. Reyes GX, Schmidt TT, Kolodner R, Hombauer H. New insights into the mechanism of DNA mismatch repair. Chromosoma. 2015 Dec; 124(4):443-62. PMID: 25862369; PMCID: PMC4600670 [Available on 12/01/16].
      10. Ragu S, Dardalhon M, Sharma S, Iraqui I, Buhagiar-Labarchède G, Grondin V, Kienda G, Vernis L, Chanet R, Kolodner R, Huang ME, Faye G. Loss of the thioredoxin reductase Trr1 suppresses the genomic instability of peroxiredoxin tsa1 mutants. PLoS One. 2014; 9(9):e108123. PMID: 25247923; PMCID: PMC4172583.
      11. Goellner EM, Smith CE, Campbell CS, Hombauer H, Desai A, Putnam CD, Kolodner R. PCNA and Msh2-Msh6 activate an Mlh1-Pms1 endonuclease pathway required for Exo1-independent mismatch repair. Mol Cell. 2014 Jul 17; 55(2):291-304. PMID: 24981171; PMCID: PMC4113420.
      12. Campbell CS, Hombauer H, Srivatsan A, Bowen N, Gries K, Desai A, Putnam CD, Kolodner R. Mlh2 is an accessory factor for DNA mismatch repair in Saccharomyces cerevisiae. PLoS Genet. 2014 May; 10(5):e1004327. PMID: 24811092; PMCID: PMC4014439.
      13. de Souza JE, Fonseca AF, Valieris R, Carraro DM, Wang JY, Kolodner R, de Souza SJ. S-score: a scoring system for the identification and prioritization of predicted cancer genes. PLoS One. 2014; 9(4):e94147. PMID: 24710071; PMCID: PMC3978018.
      14. Putnam CD, Pallis K, Hayes TK, Kolodner R. DNA repair pathway selection caused by defects in TEL1, SAE2, and de novo telomere addition generates specific chromosomal rearrangement signatures. PLoS Genet. 2014 Apr; 10(4):e1004277. PMID: 24699249; PMCID: PMC3974649.
      15. Allen-Soltero S, Martinez SL, Putnam CD, Kolodner R. A saccharomyces cerevisiae RNase H2 interaction network functions to suppress genome instability. Mol Cell Biol. 2014 Apr; 34(8):1521-34. PMID: 24550002; PMCID: PMC3993591.
      16. Srivatsan A, Bowen N, Kolodner R. Mispair-specific recruitment of the Mlh1-Pms1 complex identifies repair substrates of the Saccharomyces cerevisiae Msh2-Msh3 complex. J Biol Chem. 2014 Mar 28; 289(13):9352-64. PMID: 24550389; PMCID: PMC3979400.
      17. Bowen N, Smith CE, Srivatsan A, Willcox S, Griffith JD, Kolodner R. Reconstitution of long and short patch mismatch repair reactions using Saccharomyces cerevisiae proteins. Proc Natl Acad Sci U S A. 2013 Nov 12; 110(46):18472-7. PMID: 24187148; PMCID: PMC3831976.
      18. Smith CE, Mendillo ML, Bowen N, Hombauer H, Campbell CS, Desai A, Putnam CD, Kolodner R. Dominant mutations in S. cerevisiae PMS1 identify the Mlh1-Pms1 endonuclease active site and an exonuclease 1-independent mismatch repair pathway. PLoS Genet. 2013 Oct; 9(10):e1003869. PMID: 24204293; PMCID: PMC3814310.
      19. Hura GL, Tsai CL, Claridge SA, Mendillo ML, Smith JM, Williams GJ, Mastroianni AJ, Alivisatos AP, Putnam CD, Kolodner R, Tainer JA. DNA conformations in mismatch repair probed in solution by X-ray scattering from gold nanocrystals. Proc Natl Acad Sci U S A. 2013 Oct 22; 110(43):17308-13. PMID: 24101514; PMCID: PMC3808630.
      20. Albuquerque CP, Wang G, Lee NS, Kolodner R, Putnam CD, Zhou H. Distinct SUMO ligases cooperate with Esc2 and Slx5 to suppress duplication-mediated genome rearrangements. PLoS Genet. 2013; 9(8):e1003670. PMID: 23935535; PMCID: PMC3731205.
      21. Putnam CD, Allen-Soltero SR, Martinez SL, Chan JE, Hayes TK, Kolodner R. Bioinformatic identification of genes suppressing genome instability. Proc Natl Acad Sci U S A. 2012 Nov 20; 109(47):E3251-9. PMID: 23129647; PMCID: PMC3511103.
      22. Hargreaves VV, Putnam CD, Kolodner R. Engineered disulfide-forming amino acid substitutions interfere with a conformational change in the mismatch recognition complex Msh2-Msh6 required for mismatch repair. J Biol Chem. 2012 Nov 30; 287(49):41232-44. PMID: 23045530; PMCID: PMC3510822.
      23. Chan JE, Kolodner R. Rapid analysis of Saccharomyces cerevisiae genome rearrangements by multiplex ligation-dependent probe amplification. PLoS Genet. 2012; 8(3):e1002539. PMID: 22396658; PMCID: PMC3291544.
      24. Hombauer H, Srivatsan A, Putnam CD, Kolodner R. Mismatch repair, but not heteroduplex rejection, is temporally coupled to DNA replication. Science. 2011 Dec 23; 334(6063):1713-6. PMID: 22194578; PMCID: PMC3806717.
      25. Hombauer H, Campbell CS, Smith CE, Desai A, Kolodner R. Visualization of eukaryotic DNA mismatch repair reveals distinct recognition and repair intermediates. Cell. 2011 Nov 23; 147(5):1040-53. PMID: 22118461; PMCID: PMC3478091.
      26. Zimmermann C, Chymkowitch P, Eldholm V, Putnam CD, Lindvall JM, Omerzu M, Bjørås M, Kolodner R, Enserink JM. A chemical-genetic screen to unravel the genetic network of CDC28/CDK1 links ubiquitin and Rad6-Bre1 to cell cycle progression. Proc Natl Acad Sci U S A. 2011 Nov 15; 108(46):18748-53. PMID: 22042866; PMCID: PMC3219101.
      27. Kolodner R, Cleveland DW, Putnam CD. Cancer. Aneuploidy drives a mutator phenotype in cancer. Science. 2011 Aug 19; 333(6045):942-3. PMID: 21852477; PMCID: PMC3806716.
      28. Chan JE, Kolodner R. A genetic and structural study of genome rearrangements mediated by high copy repeat Ty1 elements. PLoS Genet. 2011 May; 7(5):e1002089. PMID: 21637792; PMCID: PMC3102749.
      29. Bandyopadhyay S, Mehta M, Kuo D, Sung MK, Chuang R, Jaehnig EJ, Bodenmiller B, Licon K, Copeland W, Shales M, Fiedler D, Dutkowski J, Guénolé A, van Attikum H, Shokat KM, Kolodner R, Huh WK, Aebersold R, Keogh MC, Krogan NJ, Ideker T. Rewiring of genetic networks in response to DNA damage. Science. 2010 Dec 03; 330(6009):1385-9. PMID: 21127252; PMCID: PMC3006187.
      30. Putnam CD, Kolodner R. Determination of gross chromosomal rearrangement rates. Cold Spring Harb Protoc. 2010 Sep 01; 2010(9):pdb.prot5492. PMID: 20810639; PMCID: PMC3047512.
      31. Putnam CD, Hayes TK, Kolodner R. Post-replication repair suppresses duplication-mediated genome instability. PLoS Genet. 2010 May 06; 6(5):e1000933. PMID: 20463880; PMCID: PMC2865514.
      32. Dowen JM, Putnam CD, Kolodner R. Functional studies and homology modeling of Msh2-Msh3 predict that mispair recognition involves DNA bending and strand separation. Mol Cell Biol. 2010 Jul; 30(13):3321-8. PMID: 20421420; PMCID: PMC2897569.
      33. Wang Y, Zhang W, Edelmann L, Kolodner R, Kucherlapati R, Edelmann W. Cis lethal genetic interactions attenuate and alter p53 tumorigenesis. Proc Natl Acad Sci U S A. 2010 Mar 23; 107(12):5511-5. PMID: 20212136; PMCID: PMC2851751.
      34. Mendillo ML, Putnam CD, Mo AO, Jamison JW, Li S, Woods VL, Kolodner R. Probing DNA- and ATP-mediated conformational changes in the MutS family of mispair recognition proteins using deuterium exchange mass spectrometry. J Biol Chem. 2010 Apr 23; 285(17):13170-82. PMID: 20181951; PMCID: PMC2857143.
      35. Martinez SL, Kolodner R. Functional analysis of human mismatch repair gene mutations identifies weak alleles and polymorphisms capable of polygenic interactions. Proc Natl Acad Sci U S A. 2010 Mar 16; 107(11):5070-5. PMID: 20176959; PMCID: PMC2841877.
      36. Hargreaves VV, Shell SS, Mazur DJ, Hess MT, Kolodner R. Interaction between the Msh2 and Msh6 nucleotide-binding sites in the Saccharomyces cerevisiae Msh2-Msh6 complex. J Biol Chem. 2010 Mar 19; 285(12):9301-10. PMID: 20089866; PMCID: PMC2838348.
      37. Mendillo ML, Hargreaves VV, Jamison JW, Mo AO, Li S, Putnam CD, Woods VL, Kolodner R. A conserved MutS homolog connector domain interface interacts with MutL homologs. Proc Natl Acad Sci U S A. 2009 Dec 29; 106(52):22223-8. PMID: 20080788; PMCID: PMC2796910.
      38. Mueller J, Gazzoli I, Bandipalliam P, Garber JE, Syngal S, Kolodner R. Comprehensive molecular analysis of mismatch repair gene defects in suspected Lynch syndrome (hereditary nonpolyposis colorectal cancer) cases. Cancer Res. 2009 Sep 01; 69(17):7053-61. PMID: 19690142; PMCID: PMC2761236.
      39. Putnam CD, Hayes TK, Kolodner R. Specific pathways prevent duplication-mediated genome rearrangements. Nature. 2009 Aug 20; 460(7258):984-9. PMID: 19641493; PMCID: PMC2785216.
      40. Pennaneach V, Kolodner R. Stabilization of dicentric translocations through secondary rearrangements mediated by multiple mechanisms in S. cerevisiae. PLoS One. 2009 Jul 28; 4(7):e6389. PMID: 19636429; PMCID: PMC2712687.
      41. Kats ES, Enserink JM, Martinez S, Kolodner R. The Saccharomyces cerevisiae Rad6 postreplication repair and Siz1/Srs2 homologous recombination-inhibiting pathways process DNA damage that arises in asf1 mutants. Mol Cell Biol. 2009 Oct; 29(19):5226-37. PMID: 19635810; PMCID: PMC2747975.
      42. Iraqui I, Kienda G, Soeur J, Faye G, Baldacci G, Kolodner R, Huang ME. Peroxiredoxin Tsa1 is the key peroxidase suppressing genome instability and protecting against cell death in Saccharomyces cerevisiae. PLoS Genet. 2009 Jun; 5(6):e1000524. PMID: 19543365; PMCID: PMC2688748.
      43. Putnam CD, Jaehnig EJ, Kolodner R. Perspectives on the DNA damage and replication checkpoint responses in Saccharomyces cerevisiae. DNA Repair (Amst). 2009 Sep 02; 8(9):974-82. PMID: 19477695; PMCID: PMC2725198.
      44. Enserink JM, Hombauer H, Huang ME, Kolodner R. Cdc28/Cdk1 positively and negatively affects genome stability in S. cerevisiae. J Cell Biol. 2009 May 04; 185(3):423-37. PMID: 19398760; PMCID: PMC2700387.
      45. Marinovic-Terzic I, Yoshioka-Yamashita A, Shimodaira H, Avdievich E, Hunton IC, Kolodner R, Edelmann W, Wang JY. Apoptotic function of human PMS2 compromised by the nonsynonymous single-nucleotide polymorphic variant R20Q. Proc Natl Acad Sci U S A. 2008 Sep 16; 105(37):13993-8. PMID: 18768816; PMCID: PMC2528866.
      46. Sivagnanam M, Mueller JL, Lee H, Chen Z, Nelson SF, Turner D, Zlotkin SH, Pencharz PB, Ngan BY, Libiger O, Schork NJ, Lavine JE, Taylor S, Newbury RO, Kolodner R, Hoffman HM. Identification of EpCAM as the gene for congenital tufting enteropathy. Gastroenterology. 2008 Aug; 135(2):429-37. PMID: 18572020; PMCID: PMC2574708.
      47. Iraqui I, Faye G, Ragu S, Masurel-Heneman A, Kolodner R, Huang ME. Human peroxiredoxin PrxI is an orthologue of yeast Tsa1, capable of suppressing genome instability in Saccharomyces cerevisiae. Cancer Res. 2008 Feb 15; 68(4):1055-63. PMID: 18281480; PMCID: PMC2761232.
      48. Kolodner R, Mendillo ML, Putnam CD. Coupling distant sites in DNA during DNA mismatch repair. Proc Natl Acad Sci U S A. 2007 Aug 07; 104(32):12953-4. PMID: 17664420; PMCID: PMC1941800.
      49. Harrington JM, Kolodner R. Saccharomyces cerevisiae Msh2-Msh3 acts in repair of base-base mispairs. Mol Cell Biol. 2007 Sep; 27(18):6546-54. PMID: 17636021; PMCID: PMC2099603.
      50. Shell SS, Putnam CD, Kolodner R. Chimeric Saccharomyces cerevisiae Msh6 protein with an Msh3 mispair-binding domain combines properties of both proteins. Proc Natl Acad Sci U S A. 2007 Jun 26; 104(26):10956-61. PMID: 17573527; PMCID: PMC1904149.
      51. Ragu S, Faye G, Iraqui I, Masurel-Heneman A, Kolodner R, Huang ME. Oxygen metabolism and reactive oxygen species cause chromosomal rearrangements and cell death. Proc Natl Acad Sci U S A. 2007 Jun 05; 104(23):9747-52. PMID: 17535927; PMCID: PMC1887571.
      52. Shell SS, Putnam CD, Kolodner R. The N terminus of Saccharomyces cerevisiae Msh6 is an unstructured tether to PCNA. Mol Cell. 2007 May 25; 26(4):565-78. PMID: 17531814; PMCID: PMC2001284.
      53. Takahashi M, Shimodaira H, Andreutti-Zaugg C, Iggo R, Kolodner R, Ishioka C. Functional analysis of human MLH1 variants using yeast and in vitro mismatch repair assays. Cancer Res. 2007 May 15; 67(10):4595-604. PMID: 17510385.
        View in: PubMed
      54. Mendillo ML, Putnam CD, Kolodner R. Escherichia coli MutS tetramerization domain structure reveals that stable dimers but not tetramers are essential for DNA mismatch repair in vivo. J Biol Chem. 2007 Jun 01; 282(22):16345-54. PMID: 17426027.
        View in: PubMed
      55. Hu Y, Rolfs A, Bhullar B, Murthy TV, Zhu C, Berger MF, Camargo AA, Kelley F, McCarron S, Jepson D, Richardson A, Raphael J, Moreira D, Taycher E, Zuo D, Mohr S, Kane MF, Williamson J, Simpson A, Bulyk ML, Harlow E, Marsischky G, Kolodner R, LaBaer J. Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae. Genome Res. 2007 Apr; 17(4):536-43. PMID: 17322287; PMCID: PMC1832101.
      56. Lagerstedt Robinson K, Liu T, Vandrovcova J, Halvarsson B, Clendenning M, Frebourg T, Papadopoulos N, Kinzler KW, Vogelstein B, Peltomäki P, Kolodner R, Nilbert M, Lindblom A. Lynch syndrome (hereditary nonpolyposis colorectal cancer) diagnostics. J Natl Cancer Inst. 2007 Feb 21; 99(4):291-9. PMID: 17312306.
        View in: PubMed
      57. Vijayakumar S, Chapados BR, Schmidt KH, Kolodner R, Tainer JA, Tomkinson AE. The C-terminal domain of yeast PCNA is required for physical and functional interactions with Cdc9 DNA ligase. Nucleic Acids Res. 2007; 35(5):1624-37. PMID: 17308348; PMCID: PMC1865074.
      58. Enserink JM, Smolka MB, Zhou H, Kolodner R. Checkpoint proteins control morphogenetic events during DNA replication stress in Saccharomyces cerevisiae. J Cell Biol. 2006 Dec 04; 175(5):729-41. PMID: 17130284; PMCID: PMC2064673.
      59. Smolka MB, Chen SH, Maddox PS, Enserink JM, Albuquerque CP, Wei XX, Desai A, Kolodner R, Zhou H. An FHA domain-mediated protein interaction network of Rad53 reveals its role in polarized cell growth. J Cell Biol. 2006 Dec 04; 175(5):743-53. PMID: 17130285; PMCID: PMC2064674.
      60. Schmidt KH, Kolodner R. Suppression of spontaneous genome rearrangements in yeast DNA helicase mutants. Proc Natl Acad Sci U S A. 2006 Nov 28; 103(48):18196-201. PMID: 17114288; PMCID: PMC1838729.
      61. Chen CC, Motegi A, Hasegawa Y, Myung K, Kolodner R, D'Andrea A. Genetic analysis of ionizing radiation-induced mutagenesis in Saccharomyces cerevisiae reveals TransLesion Synthesis (TLS) independent of PCNA K164 SUMOylation and ubiquitination. DNA Repair (Amst). 2006 Dec 09; 5(12):1475-88. PMID: 16990054.
        View in: PubMed
      62. Schmidt KH, Wu J, Kolodner R. Control of translocations between highly diverged genes by Sgs1, the Saccharomyces cerevisiae homolog of the Bloom's syndrome protein. Mol Cell Biol. 2006 Jul; 26(14):5406-20. PMID: 16809776; PMCID: PMC1592713.
      63. Mazur DJ, Mendillo ML, Kolodner R. Inhibition of Msh6 ATPase activity by mispaired DNA induces a Msh2(ATP)-Msh6(ATP) state capable of hydrolysis-independent movement along DNA. Mol Cell. 2006 Apr 07; 22(1):39-49. PMID: 16600868.
        View in: PubMed
      64. Pennaneach V, Putnam CD, Kolodner R. Chromosome healing by de novo telomere addition in Saccharomyces cerevisiae. Mol Microbiol. 2006 Mar; 59(5):1357-68. PMID: 16468981.
        View in: PubMed
      65. Kats ES, Albuquerque CP, Zhou H, Kolodner R. Checkpoint functions are required for normal S-phase progression in Saccharomyces cerevisiae RCAF- and CAF-I-defective mutants. Proc Natl Acad Sci U S A. 2006 Mar 07; 103(10):3710-5. PMID: 16501045; PMCID: PMC1533778.
      66. Hess MT, Mendillo ML, Mazur DJ, Kolodner R. Biochemical basis for dominant mutations in the Saccharomyces cerevisiae MSH6 gene. Proc Natl Acad Sci U S A. 2006 Jan 17; 103(3):558-63. PMID: 16407100; PMCID: PMC1334674.
      67. Schmidt KH, Pennaneach V, Putnam CD, Kolodner R. Analysis of gross-chromosomal rearrangements in Saccharomyces cerevisiae. Methods Enzymol. 2006; 409:462-76. PMID: 16793418.
        View in: PubMed
      68. Putnam CD, Pennaneach V, Kolodner R. Saccharomyces cerevisiae as a model system to define the chromosomal instability phenotype. Mol Cell Biol. 2005 Aug; 25(16):7226-38. PMID: 16055731; PMCID: PMC1190249.
      69. Smolka MB, Albuquerque CP, Chen SH, Schmidt KH, Wei XX, Kolodner R, Zhou H. Dynamic changes in protein-protein interaction and protein phosphorylation probed with amine-reactive isotope tag. Mol Cell Proteomics. 2005 Sep; 4(9):1358-69. PMID: 15972895; PMCID: PMC2813687.
      70. Wang Y, Putnam CD, Kane MF, Zhang W, Edelmann L, Russell R, Carrión DV, Chin L, Kucherlapati R, Kolodner R, Edelmann W. Mutation in Rpa1 results in defective DNA double-strand break repair, chromosomal instability and cancer in mice. Nat Genet. 2005 Jul; 37(7):750-5. PMID: 15965476.
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      71. Smith S, Gupta A, Kolodner R, Myung K. Suppression of gross chromosomal rearrangements by the multiple functions of the Mre11-Rad50-Xrs2 complex in Saccharomyces cerevisiae. DNA Repair (Amst). 2005 May 02; 4(5):606-17. PMID: 15811632.
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      72. Mendillo ML, Mazur DJ, Kolodner R. Analysis of the interaction between the Saccharomyces cerevisiae MSH2-MSH6 and MLH1-PMS1 complexes with DNA using a reversible DNA end-blocking system. J Biol Chem. 2005 Jun 10; 280(23):22245-57. PMID: 15811858.
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      73. Huang ME, Kolodner R. A biological network in Saccharomyces cerevisiae prevents the deleterious effects of endogenous oxidative DNA damage. Mol Cell. 2005 Mar 04; 17(5):709-20. PMID: 15749020.
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      74. Sadler GR, Peterson M, Wasserman L, Mills P, Malcarne VL, Rock C, Ancoli-Israel S, Moore A, Weldon RN, Garcia T, Kolodner R. Recruiting research participants at community education sites. J Cancer Educ. 2005; 20(4):235-9. PMID: 16497136; PMCID: PMC1599707.
      75. Tajima A, Hess MT, Cabrera BL, Kolodner R, Carethers JM. The mismatch repair complex hMutS alpha recognizes 5-fluorouracil-modified DNA: implications for chemosensitivity and resistance. Gastroenterology. 2004 Dec; 127(6):1678-84. PMID: 15578504.
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      76. Myung K, Smith S, Kolodner R. Mitotic checkpoint function in the formation of gross chromosomal rearrangements in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A. 2004 Nov 09; 101(45):15980-5. PMID: 15514023; PMCID: PMC528767.
      77. Putnam CD, Pennaneach V, Kolodner R. Chromosome healing through terminal deletions generated by de novo telomere additions in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A. 2004 Sep 07; 101(36):13262-7. PMID: 15328403; PMCID: PMC516557.
      78. Yang G, Scherer SJ, Shell SS, Yang K, Kim M, Lipkin M, Kucherlapati R, Kolodner R, Edelmann W. Dominant effects of an Msh6 missense mutation on DNA repair and cancer susceptibility. Cancer Cell. 2004 Aug; 6(2):139-50. PMID: 15324697.
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      79. Pennaneach V, Kolodner R. Recombination and the Tel1 and Mec1 checkpoints differentially effect genome rearrangements driven by telomere dysfunction in yeast. Nat Genet. 2004 Jun; 36(6):612-7. PMID: 15133512.
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      80. Tornaletti S, Maeda LS, Kolodner R, Hanawalt PC. Effect of 8-oxoguanine on transcription elongation by T7 RNA polymerase and mammalian RNA polymerase II. DNA Repair (Amst). 2004 May 04; 3(5):483-94. PMID: 15084310.
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      81. Mazina OM, Mazin AV, Nakagawa T, Kolodner R, Kowalczykowski SC. Saccharomyces cerevisiae Mer3 helicase stimulates 3'-5' heteroduplex extension by Rad51; implications for crossover control in meiotic recombination. Cell. 2004 Apr 02; 117(1):47-56. PMID: 15066281.
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      82. Schmidt KH, Kolodner R. Requirement of Rrm3 helicase for repair of spontaneous DNA lesions in cells lacking Srs2 or Sgs1 helicase. Mol Cell Biol. 2004 Apr; 24(8):3213-26. PMID: 15060145; PMCID: PMC381612.
      83. Bandipalliam P, Garber J, Kolodner R, Syngal S. Clinical presentation correlates with the type of mismatch repair gene involved in hereditary nonpolyposis colon cancer. Gastroenterology. 2004 Mar; 126(3):936-7. PMID: 14988860.
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      84. Huang ME, Rio AG, Nicolas A, Kolodner R. A genomewide screen in Saccharomyces cerevisiae for genes that suppress the accumulation of mutations. Proc Natl Acad Sci U S A. 2003 Sep 30; 100(20):11529-34. PMID: 12972632; PMCID: PMC208792.
      85. Myung K, Pennaneach V, Kats ES, Kolodner R. Saccharomyces cerevisiae chromatin-assembly factors that act during DNA replication function in the maintenance of genome stability. Proc Natl Acad Sci U S A. 2003 May 27; 100(11):6640-5. PMID: 12750463; PMCID: PMC164500.
      86. Kantake N, Sugiyama T, Kolodner R, Kowalczykowski SC. The recombination-deficient mutant RPA (rfa1-t11) is displaced slowly from single-stranded DNA by Rad51 protein. J Biol Chem. 2003 Jun 27; 278(26):23410-7. PMID: 12697761.
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      89. Shimodaira H, Yoshioka-Yamashita A, Kolodner R, Wang JY. Interaction of mismatch repair protein PMS2 and the p53-related transcription factor p73 in apoptosis response to cisplatin. Proc Natl Acad Sci U S A. 2003 Mar 04; 100(5):2420-5. PMID: 12601175; PMCID: PMC151356.
      90. Jagmohan-Changur S, Poikonen T, Vilkki S, Launonen V, Wikman F, Orntoft TF, Møller P, Vasen H, Tops C, Kolodner R, Mecklin JP, Järvinen H, Bevan S, Houlston RS, Aaltonen LA, Fodde R, Wijnen J, Karhu A. EXO1 variants occur commonly in normal population: evidence against a role in hereditary nonpolyposis colorectal cancer. Cancer Res. 2003 Jan 01; 63(1):154-8. PMID: 12517792.
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      91. Hoffman HM, Gregory SG, Mueller JL, Tresierras M, Broide DH, Wanderer AA, Kolodner R. Fine structure mapping of CIAS1: identification of an ancestral haplotype and a common FCAS mutation, L353P. Hum Genet. 2003 Feb; 112(2):209-16. PMID: 12522564.
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      92. Lau PJ, Kolodner R. Transfer of the MSH2.MSH6 complex from proliferating cell nuclear antigen to mispaired bases in DNA. J Biol Chem. 2003 Jan 03; 278(1):14-7. PMID: 12435741.
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      93. Lau PJ, Flores-Rozas H, Kolodner R. Isolation and characterization of new proliferating cell nuclear antigen (POL30) mutator mutants that are defective in DNA mismatch repair. Mol Cell Biol. 2002 Oct; 22(19):6669-80. PMID: 12215524; PMCID: PMC134031.
      94. Schmidt KH, Derry KL, Kolodner R. Saccharomyces cerevisiae RRM3, a 5' to 3' DNA helicase, physically interacts with proliferating cell nuclear antigen. J Biol Chem. 2002 Nov 22; 277(47):45331-7. PMID: 12239216.
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      95. Kolodner R, Putnam CD, Myung K. Maintenance of genome stability in Saccharomyces cerevisiae. Science. 2002 Jul 26; 297(5581):552-7. PMID: 12142524.
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      96. Kucherlapati M, Yang K, Kuraguchi M, Zhao J, Lia M, Heyer J, Kane MF, Fan K, Russell R, Brown AM, Kneitz B, Edelmann W, Kolodner R, Lipkin M, Kucherlapati R. Haploinsufficiency of Flap endonuclease (Fen1) leads to rapid tumor progression. Proc Natl Acad Sci U S A. 2002 Jul 23; 99(15):9924-9. PMID: 12119409; PMCID: PMC126601.
      97. Gazzoli I, Loda M, Garber J, Syngal S, Kolodner R. A hereditary nonpolyposis colorectal carcinoma case associated with hypermethylation of the MLH1 gene in normal tissue and loss of heterozygosity of the unmethylated allele in the resulting microsatellite instability-high tumor. Cancer Res. 2002 Jul 15; 62(14):3925-8. PMID: 12124320.
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      98. Wahlberg SS, Schmeits J, Thomas G, Loda M, Garber J, Syngal S, Kolodner R, Fox E. Evaluation of microsatellite instability and immunohistochemistry for the prediction of germ-line MSH2 and MLH1 mutations in hereditary nonpolyposis colon cancer families. Cancer Res. 2002 Jun 15; 62(12):3485-92. PMID: 12067992.
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      99. Soustelle C, Vedel M, Kolodner R, Nicolas A. Replication protein A is required for meiotic recombination in Saccharomyces cerevisiae. Genetics. 2002 Jun; 161(2):535-47. PMID: 12072452; PMCID: PMC1462150.
      100. Nakagawa T, Kolodner R. The MER3 DNA helicase catalyzes the unwinding of holliday junctions. J Biol Chem. 2002 Aug 02; 277(31):28019-24. PMID: 12039965.
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      101. Nakagawa T, Kolodner R. Saccharomyces cerevisiae Mer3 is a DNA helicase involved in meiotic crossing over. Mol Cell Biol. 2002 May; 22(10):3281-91. PMID: 11971962; PMCID: PMC133777.
      102. Hess MT, Gupta RD, Kolodner R. Dominant Saccharomyces cerevisiae msh6 mutations cause increased mispair binding and decreased dissociation from mispairs by Msh2-Msh6 in the presence of ATP. J Biol Chem. 2002 Jul 12; 277(28):25545-53. PMID: 11986324.
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      103. Myung K, Kolodner R. Suppression of genome instability by redundant S-phase checkpoint pathways in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A. 2002 Apr 02; 99(7):4500-7. PMID: 11917116; PMCID: PMC123677.
      104. Kolodner R, Tytell JD, Schmeits JL, Kane MF, Gupta RD, Weger J, Wahlberg S, Fox EA, Peel D, Ziogas A, Garber JE, Syngal S, Anton-Culver H, Li FP. Germ-line msh6 mutations in colorectal cancer families. Cancer Res. 1999 Oct 15; 59(20):5068-74. PMID: 10537275.
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