Loading...

Richard Kolodner

TitleProfessor
InstitutionUniversity of California San Diego
DepartmentCellular and Molecular Medicine
Address9500 Gilman Drive #0669
La Jolla CA 92093
Phone858-534-7804
vCardDownload vCard

    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:



    Collapse Research 
    Collapse Research Activities and Funding
    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, 2022
    Role: Principal Investigator
    ENZYMATIC MECHANISMS OF GENETIC RECOMBINATION
    NIH/NIGMS R37GM026017Dec 1, 1978 - Mar 31, 2002
    Role: Principal Investigator

    Collapse ORNG Applications 
    Collapse Websites

    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. Graham WJ, Putnam CD, Kolodner RD. The properties of Msh2-Msh6 ATP binding mutants suggest a signal amplification mechanism in DNA mismatch repair. J Biol Chem. 2018 Sep 20. PMID: 30237169.
      View in: PubMed
    2. Srivatsan A, Li BZ, Szakal B, Branzei D, Putnam CD, Kolodner RD. The Swr1 chromatin-remodeling complex prevents genome instability induced by replication fork progression defects. Nat Commun. 2018 Sep 11; 9(1):3680. PMID: 30206225.
      View in: PubMed
    3. Goellner EM, Putnam CD, Graham WJ, Rahal CM, Li BZ, Kolodner RD. Identification of Exo1-Msh2 interaction motifs in DNA mismatch repair and new Msh2-binding partners. Nat Struct Mol Biol. 2018 Aug; 25(8):650-659. PMID: 30061603.
      View in: PubMed
    4. Liang J, Li BZ, Tan AP, Kolodner RD, Putnam CD, Zhou H. SUMO E3 ligase Mms21 prevents spontaneous DNA damage induced genome rearrangements. PLoS Genet. 2018 Mar; 14(3):e1007250. PMID: 29505562.
      View in: PubMed
    5. Nene RV, Putnam CD, Li BZ, Nguyen KG, Srivatsan A, Campbell CS, Desai A, Kolodner RD. Cdc73 suppresses genome instability by mediating telomere homeostasis. PLoS Genet. 2018 Jan; 14(1):e1007170. PMID: 29320491.
      View in: PubMed
    6. Srivatsan A, Putnam CD, Kolodner RD. Analyzing Genome Rearrangements in Saccharomyces cerevisiae. Methods Mol Biol. 2018; 1672:43-61. PMID: 29043616.
      View in: PubMed
    7. Putnam CD, Kolodner RD. Pathways and Mechanisms that Prevent Genome Instability in Saccharomyces cerevisiae. Genetics. 2017 07; 206(3):1187-1225. PMID: 28684602.
      View in: PubMed
    8. Bowen N, Kolodner RD. Reconstitution of Saccharomyces cerevisiae DNA polymerase e-dependent mismatch repair with purified proteins. Proc Natl Acad Sci U S A. 2017 04 04; 114(14):3607-3612. PMID: 28265089.
      View in: PubMed
    9. 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 RD, Cowan NJ, Keays DA, Gleeson JG. Uner Tan syndrome caused by a homozygous TUBB2B mutation affecting microtubule stability. Hum Mol Genet. 2017 01 15; 26(2):258-269. PMID: 28013290.
      View in: PubMed
    10. Albuquerque CP, Wang G, Lee NS, Kolodner RD, 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
    11. Putnam CD, Srivatsan A, Nene RV, Martinez SL, Clotfelter SP, Bell SN, Somach SB, de Souza JE, Fonseca AF, de Souza SJ, Kolodner RD. 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.
    12. Kolodner RD. 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].
    13. Smith CE, Bowen N, Graham WJ, Goellner EM, Srivatsan A, Kolodner RD. 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.
    14. Goellner EM, Putnam CD, Kolodner RD. Exonuclease 1-dependent and independent mismatch repair. DNA Repair (Amst). 2015 Aug; 32:24-32. PMID: 25956862; PMCID: PMC4522362.
    15. Reyes GX, Schmidt TT, Kolodner RD, 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].
    16. Ragu S, Dardalhon M, Sharma S, Iraqui I, Buhagiar-Labarchède G, Grondin V, Kienda G, Vernis L, Chanet R, Kolodner RD, 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.
    17. Goellner EM, Smith CE, Campbell CS, Hombauer H, Desai A, Putnam CD, Kolodner RD. 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.
    18. Campbell CS, Hombauer H, Srivatsan A, Bowen N, Gries K, Desai A, Putnam CD, Kolodner RD. Mlh2 is an accessory factor for DNA mismatch repair in Saccharomyces cerevisiae. PLoS Genet. 2014 May; 10(5):e1004327. PMID: 24811092; PMCID: PMC4014439.
    19. de Souza JE, Fonseca AF, Valieris R, Carraro DM, Wang JY, Kolodner RD, 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.
    20. Putnam CD, Pallis K, Hayes TK, Kolodner RD. 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.
    21. Allen-Soltero S, Martinez SL, Putnam CD, Kolodner RD. 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.
    22. Srivatsan A, Bowen N, Kolodner RD. 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.
    23. Bowen N, Smith CE, Srivatsan A, Willcox S, Griffith JD, Kolodner RD. 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.
    24. Smith CE, Mendillo ML, Bowen N, Hombauer H, Campbell CS, Desai A, Putnam CD, Kolodner RD. 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.
    25. Hura GL, Tsai CL, Claridge SA, Mendillo ML, Smith JM, Williams GJ, Mastroianni AJ, Alivisatos AP, Putnam CD, Kolodner RD, 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.
    26. Albuquerque CP, Wang G, Lee NS, Kolodner RD, 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.
    27. Jaehnig EJ, Kuo D, Hombauer H, Ideker TG, Kolodner RD. Checkpoint kinases regulate a global network of transcription factors in response to DNA damage. Cell Rep. 2013 Jul 11; 4(1):174-88. PMID: 23810556; PMCID: PMC3855057.
    28. Putnam CD, Allen-Soltero SR, Martinez SL, Chan JE, Hayes TK, Kolodner RD. 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.
    29. Hargreaves VV, Putnam CD, Kolodner RD. 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.
    30. Chan JE, Kolodner RD. Rapid analysis of Saccharomyces cerevisiae genome rearrangements by multiplex ligation-dependent probe amplification. PLoS Genet. 2012; 8(3):e1002539. PMID: 22396658; PMCID: PMC3291544.
    31. Enserink JM, Kolodner RD. What makes the engine hum: Rad6, a cell cycle supercharger. Cell Cycle. 2012 Jan 15; 11(2):249-52. PMID: 22214660; PMCID: PMC3356825.
    32. Hombauer H, Srivatsan A, Putnam CD, Kolodner RD. Mismatch repair, but not heteroduplex rejection, is temporally coupled to DNA replication. Science. 2011 Dec 23; 334(6063):1713-6. PMID: 22194578; PMCID: PMC3806717.
    33. Hombauer H, Campbell CS, Smith CE, Desai A, Kolodner RD. Visualization of eukaryotic DNA mismatch repair reveals distinct recognition and repair intermediates. Cell. 2011 Nov 23; 147(5):1040-53. PMID: 22118461; PMCID: PMC3478091.
    34. Zimmermann C, Chymkowitch P, Eldholm V, Putnam CD, Lindvall JM, Omerzu M, Bjørås M, Kolodner RD, 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.
    35. Kolodner RD, Cleveland DW, Putnam CD. Cancer. Aneuploidy drives a mutator phenotype in cancer. Science. 2011 Aug 19; 333(6045):942-3. PMID: 21852477; PMCID: PMC3806716.
    36. Chan JE, Kolodner RD. 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.
    37. 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 RD, 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.
    38. Putnam CD, Kolodner RD. Determination of gross chromosomal rearrangement rates. Cold Spring Harb Protoc. 2010 Sep 01; 2010(9):pdb.prot5492. PMID: 20810639; PMCID: PMC3047512.
    39. Wang Y, Huang B, Edelmann L, Kolodner RD, Edelmann W. Genes essential for cell viability that are linked to tumor suppressor genes play a role in cancer susceptibility. Cell Cycle. 2010 Aug 15; 9(16):3144-5. PMID: 20703099; PMCID: PMC3685627.
    40. Enserink JM, Kolodner RD. An overview of Cdk1-controlled targets and processes. Cell Div. 2010 May 13; 5:11. PMID: 20465793; PMCID: PMC2876151.
    41. Putnam CD, Hayes TK, Kolodner RD. Post-replication repair suppresses duplication-mediated genome instability. PLoS Genet. 2010 May 06; 6(5):e1000933. PMID: 20463880; PMCID: PMC2865514.
    42. Dowen JM, Putnam CD, Kolodner RD. 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.
    43. Wang Y, Zhang W, Edelmann L, Kolodner RD, 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.
    44. Mendillo ML, Putnam CD, Mo AO, Jamison JW, Li S, Woods VL, Kolodner RD. 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.
    45. Martinez SL, Kolodner RD. 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.
    46. Hargreaves VV, Shell SS, Mazur DJ, Hess MT, Kolodner RD. 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.
    47. Mendillo ML, Hargreaves VV, Jamison JW, Mo AO, Li S, Putnam CD, Woods VL, Kolodner RD. 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.
    48. Mueller J, Gazzoli I, Bandipalliam P, Garber JE, Syngal S, Kolodner RD. 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.
    49. Putnam CD, Hayes TK, Kolodner RD. Specific pathways prevent duplication-mediated genome rearrangements. Nature. 2009 Aug 20; 460(7258):984-9. PMID: 19641493; PMCID: PMC2785216.
    50. Pennaneach V, Kolodner RD. 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.
    51. Kats ES, Enserink JM, Martinez S, Kolodner RD. 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.
    52. Iraqui I, Kienda G, Soeur J, Faye G, Baldacci G, Kolodner RD, 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.
    53. Putnam CD, Jaehnig EJ, Kolodner RD. 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.
    54. Enserink JM, Hombauer H, Huang ME, Kolodner RD. 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.
    55. Marinovic-Terzic I, Yoshioka-Yamashita A, Shimodaira H, Avdievich E, Hunton IC, Kolodner RD, 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.
    56. 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 RD, Hoffman HM. Identification of EpCAM as the gene for congenital tufting enteropathy. Gastroenterology. 2008 Aug; 135(2):429-37. PMID: 18572020; PMCID: PMC2574708.
    57. Iraqui I, Faye G, Ragu S, Masurel-Heneman A, Kolodner RD, 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.
    58. Kolodner RD, 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.
    59. Harrington JM, Kolodner RD. Saccharomyces cerevisiae Msh2-Msh3 acts in repair of base-base mispairs. Mol Cell Biol. 2007 Sep; 27(18):6546-54. PMID: 17636021; PMCID: PMC2099603.
    60. Shell SS, Putnam CD, Kolodner RD. 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.
    61. Ragu S, Faye G, Iraqui I, Masurel-Heneman A, Kolodner RD, 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.
    62. Shell SS, Putnam CD, Kolodner RD. 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.
    63. Takahashi M, Shimodaira H, Andreutti-Zaugg C, Iggo R, Kolodner RD, 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
    64. Mendillo ML, Putnam CD, Kolodner RD. 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
    65. Aksentijevich I, Putnam CD, Remmers EF, Mueller JL, Le J, Kolodner RD, Moak Z, Chuang M, Austin F, Goldbach-Mansky R, Hoffman HM, Kastner DL. The clinical continuum of cryopyrinopathies: novel CIAS1 mutations in North American patients and a new cryopyrin model. Arthritis Rheum. 2007 Apr; 56(4):1273-1285. PMID: 17393462; PMCID: PMC4321998.
    66. 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 RD, 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.
    67. Lagerstedt Robinson K, Liu T, Vandrovcova J, Halvarsson B, Clendenning M, Frebourg T, Papadopoulos N, Kinzler KW, Vogelstein B, Peltomäki P, Kolodner RD, 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
    68. Vijayakumar S, Chapados BR, Schmidt KH, Kolodner RD, 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.
    69. Smolka MB, Chen SH, Maddox PS, Enserink JM, Albuquerque CP, Wei XX, Desai A, Kolodner RD, 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.
    70. Enserink JM, Smolka MB, Zhou H, Kolodner RD. 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.
    71. Schmidt KH, Kolodner RD. 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.
    72. 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
    73. Schmidt KH, Wu J, Kolodner RD. 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.
    74. Cooper AA, Gitler AD, Cashikar A, Haynes CM, Hill KJ, Bhullar B, Liu K, Xu K, Strathearn KE, Liu F, Cao S, Caldwell KA, Caldwell GA, Marsischky G, Kolodner RD, Labaer J, Rochet JC, Bonini NM, Lindquist S. Alpha-synuclein blocks ER-Golgi traffic and Rab1 rescues neuron loss in Parkinson's models. Science. 2006 Jul 21; 313(5785):324-8. PMID: 16794039; PMCID: PMC1983366.
    75. Mazur DJ, Mendillo ML, Kolodner RD. 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
    76. Pennaneach V, Putnam CD, Kolodner RD. Chromosome healing by de novo telomere addition in Saccharomyces cerevisiae. Mol Microbiol. 2006 Mar; 59(5):1357-68. PMID: 16468981.
      View in: PubMed
    77. Kats ES, Albuquerque CP, Zhou H, Kolodner RD. 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.
    78. Hess MT, Mendillo ML, Mazur DJ, Kolodner RD. 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.
    79. Schmidt KH, Pennaneach V, Putnam CD, Kolodner RD. Analysis of gross-chromosomal rearrangements in Saccharomyces cerevisiae. Methods Enzymol. 2006; 409:462-76. PMID: 16793418.
      View in: PubMed
    80. Putnam CD, Pennaneach V, Kolodner RD. 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.
    81. Smolka MB, Albuquerque CP, Chen SH, Schmidt KH, Wei XX, Kolodner RD, 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.
    82. Wang Y, Putnam CD, Kane MF, Zhang W, Edelmann L, Russell R, Carrión DV, Chin L, Kucherlapati R, Kolodner RD, 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.
      View in: PubMed
    83. Smith S, Gupta A, Kolodner RD, 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.
      View in: PubMed
    84. Mendillo ML, Mazur DJ, Kolodner RD. 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.
      View in: PubMed
    85. Huang ME, Kolodner RD. 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.
      View in: PubMed
    86. Sadler GR, Peterson M, Wasserman L, Mills P, Malcarne VL, Rock C, Ancoli-Israel S, Moore A, Weldon RN, Garcia T, Kolodner RD. Recruiting research participants at community education sites. J Cancer Educ. 2005; 20(4):235-9. PMID: 16497136; PMCID: PMC1599707.
    87. Tajima A, Hess MT, Cabrera BL, Kolodner RD, 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.
      View in: PubMed
    88. Myung K, Smith S, Kolodner RD. 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.
    89. Putnam CD, Pennaneach V, Kolodner RD. 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.
    90. Yang G, Scherer SJ, Shell SS, Yang K, Kim M, Lipkin M, Kucherlapati R, Kolodner RD, 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.
      View in: PubMed
    91. Pennaneach V, Kolodner RD. 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.
      View in: PubMed
    92. Tornaletti S, Maeda LS, Kolodner RD, 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.
      View in: PubMed
    93. Mazina OM, Mazin AV, Nakagawa T, Kolodner RD, 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.
      View in: PubMed
    94. Schmidt KH, Kolodner RD. 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.
    95. Bandipalliam P, Garber J, Kolodner RD, 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.
      View in: PubMed
    96. Gazzoli I, Kolodner RD. Regulation of the human MSH6 gene by the Sp1 transcription factor and alteration of promoter activity and expression by polymorphisms. Mol Cell Biol. 2003 Nov; 23(22):7992-8007. PMID: 14585961; PMCID: PMC262342.
    97. Huang ME, Rio AG, Nicolas A, Kolodner RD. 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.
    98. Myung K, Pennaneach V, Kats ES, Kolodner RD. 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.
    99. Kantake N, Sugiyama T, Kolodner RD, 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.
      View in: PubMed
    100. Wei K, Clark AB, Wong E, Kane MF, Mazur DJ, Parris T, Kolas NK, Russell R, Hou H, Kneitz B, Yang G, Kunkel TA, Kolodner RD, Cohen PE, Edelmann W. Inactivation of Exonuclease 1 in mice results in DNA mismatch repair defects, increased cancer susceptibility, and male and female sterility. Genes Dev. 2003 Mar 01; 17(5):603-14. PMID: 12629043; PMCID: PMC196005.
    101. Myung K, Kolodner RD. Induction of genome instability by DNA damage in Saccharomyces cerevisiae. DNA Repair (Amst). 2003 Mar 01; 2(3):243-58. PMID: 12547388.
      View in: PubMed
    102. Shimodaira H, Yoshioka-Yamashita A, Kolodner RD, 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.
    103. Noirot P, Gupta RC, Radding CM, Kolodner RD. Hallmarks of homology recognition by RecA-like recombinases are exhibited by the unrelated Escherichia coli RecT protein. EMBO J. 2003 Jan 15; 22(2):324-34. PMID: 12514138; PMCID: PMC140102.
    104. Jagmohan-Changur S, Poikonen T, Vilkki S, Launonen V, Wikman F, Orntoft TF, Møller P, Vasen H, Tops C, Kolodner RD, 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.
      View in: PubMed
    105. Hoffman HM, Gregory SG, Mueller JL, Tresierras M, Broide DH, Wanderer AA, Kolodner RD. 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.
      View in: PubMed
    106. Lau PJ, Kolodner RD. 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.
      View in: PubMed
    107. Lau PJ, Flores-Rozas H, Kolodner RD. 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.
    108. Schmidt KH, Derry KL, Kolodner RD. 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.
      View in: PubMed
    109. Kolodner RD, Putnam CD, Myung K. Maintenance of genome stability in Saccharomyces cerevisiae. Science. 2002 Jul 26; 297(5581):552-7. PMID: 12142524.
      View in: PubMed
    110. 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 RD, 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.
    111. Gazzoli I, Loda M, Garber J, Syngal S, Kolodner RD. 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.
      View in: PubMed
    112. Wahlberg SS, Schmeits J, Thomas G, Loda M, Garber J, Syngal S, Kolodner RD, 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.
      View in: PubMed
    113. 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.
    114. Nakagawa T, Kolodner RD. The MER3 DNA helicase catalyzes the unwinding of holliday junctions. J Biol Chem. 2002 Aug 02; 277(31):28019-24. PMID: 12039965.
      View in: PubMed
    115. Hess MT, Gupta RD, Kolodner RD. 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.
      View in: PubMed
    116. Nakagawa T, Kolodner RD. 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.
    117. Myung K, Kolodner RD. 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.
    118. Kolodner RD, 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.
      View in: PubMed