DNA-Directed DNA Polymerase

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  Subject Areas on Research

  • A DNA nanotransport device powered by polymerase phi29. 
  • A Small Molecule Targeting Mutagenic Translesion Synthesis Improves Chemotherapy. 
  • Analysis of APOBEC-induced mutations in yeast strains with low levels of replicative DNA polymerases. 
  • Arrest of replication by mammalian DNA polymerases alpha and beta caused by chromium-DNA lesions. 
  • Assembly and disassembly of DNA polymerase holoenzyme. 
  • Bacteriophage T4 initiates bidirectional DNA replication through a two-step process. 
  • Bacteriophage T4 proteins replicate plasmids with a preformed R loop at the T4 ori(uvsY) replication origin in vitro. 
  • Base composition of mononucleotide runs affects DNA polymerase slippage and removal of frameshift intermediates by mismatch repair in Saccharomyces cerevisiae. 
  • Base-specific arrest of in vitro DNA replication by carcinogenic chromium: relationship to DNA interstrand crosslinking. 
  • Boranophosphates as mimics of natural phosphodiesters in DNA. 
  • Clamp subunit dissociation dictates bacteriophage T4 DNA polymerase holoenzyme disassembly. 
  • Comparison of the Digene Hybrid Capture System Cytomegalovirus (CMV) DNA (version 2.0), Roche CMV UL54 analyte-specific reagent, and QIAGEN RealArt CMV LightCycler PCR reagent tests using AcroMetrix OptiQuant CMV DNA quantification panels and specimens from allogeneic-stem-cell transplant recipients. 
  • Critical role of chromium (Cr)-DNA interactions in the formation of Cr-induced polymerase arresting lesions. 
  • Crystal structure of a pol alpha family DNA polymerase from the hyperthermophilic archaeon Thermococcus sp. 9 degrees N-7. 
  • Crystallization and preliminary diffraction analysis of a hyperthermostable DNA polymerase from a Thermococcus archaeon. 
  • DNA polymerase delta is required for human mismatch repair in vitro. 
  • DNA polymerase zeta introduces multiple mutations when bypassing spontaneous DNA damage in Saccharomyces cerevisiae. 
  • DNA polymerase zeta is essential for hexavalent chromium-induced mutagenesis. 
  • DNA polymerase ζ as a potential biomarker of chemoradiation resistance and poor prognosis for cervical cancer. 
  • DNA polymerases versus HIV reverse transcriptase in AIDS therapy. 
  • DNA replication. 
  • Destabilization of tracts of simple repetitive DNA in yeast by mutations affecting DNA mismatch repair. 
  • Differential expression of mitochondrial DNA replication factors in mammalian tissues. 
  • Differential impact of ionic and coordinate covalent chromium (Cr)-DNA binding on DNA replication. 
  • Direct carrier testing in 14 families with haemophilia B. 
  • Directed enzymatic activation of 1-D DNA tiles. 
  • Dissecting the order of bacteriophage T4 DNA polymerase holoenzyme assembly. 
  • Dissociation of bacteriophage T4 DNA polymerase and its processivity clamp after completion of Okazaki fragment synthesis. 
  • Dynamic basis for dG•dT misincorporation via tautomerization and ionization. 
  • Effects of glutathione on chromium-induced DNA crosslinking and DNA polymerase arrest. 
  • Enhanced repair of a cisplatin-damaged reporter chloramphenicol-O-acetyltransferase gene and altered activities of DNA polymerases alpha and beta, and DNA ligase in cells of a human malignant glioma following in vivo cisplatin therapy. 
  • Error-prone replication of oxidatively damaged DNA by a high-fidelity DNA polymerase. 
  • Exome sequencing reveals recurrent REV3L mutations in cisplatin-resistant squamous cell carcinoma of head and neck. 
  • Expression in Escherichia coli of the thermostable DNA polymerase from Pyrococcus furiosus. 
  • Fast and compact DNA logic circuits based on single-stranded gates using strand-displacing polymerase. 
  • Formaldehyde-induced mutagenesis in Saccharomyces cerevisiae: molecular properties and the roles of repair and bypass systems. 
  • Frameshifts and deletions during in vitro translesion synthesis past Pt-DNA adducts by DNA polymerases beta and eta. 
  • Genetic Control of Genomic Alterations Induced in Yeast by Interstitial Telomeric Sequences. 
  • Genetic control of microsatellite stability. 
  • Genome-wide high-resolution mapping of chromosome fragile sites in Saccharomyces cerevisiae. 
  • Genomic amplification with transcript sequencing. 
  • Genomic deletions and point mutations induced in Saccharomyces cerevisiae by the trinucleotide repeats (GAA·TTC) associated with Friedreich's ataxia. 
  • Human mismatch repair: reconstitution of a nick-directed bidirectional reaction. 
  • Human mitochondrial DNA polymerase gamma exhibits potential for bypass and mutagenesis at UV-induced cyclobutane thymine dimers 
  • Identification of a strand-related bias in the PCNA-mediated bypass of spontaneous lesions by yeast Poleta. 
  • Identification, chromosomal mapping and tissue-specific expression of hREV3 encoding a putative human DNA polymerase zeta. 
  • Introduction of the alpha-P-borano-group into deoxynucleoside triphosphates increases their selectivity to HIV-1 reverse transcriptase relative to DNA polymerases. 
  • Kinetic mechanism of the DNA-dependent DNA polymerase activity of human immunodeficiency virus reverse transcriptase. 
  • Manganese superoxide dismutase is a mitochondrial fidelity protein that protects Polγ against UV-induced inactivation. 
  • Methods for precise sizing, automated binning of alleles, and reduction of error rates in large-scale genotyping using fluorescently labeled dinucleotide markers. FUSION (Finland-U.S. Investigation of NIDDM Genetics) Study Group. 
  • Methyl-directed mismatch repair is bidirectional. 
  • Mitochondrial neurogastrointestinal encephalomyopathy (MNGIE)-like phenotype in a patient with a novel heterozygous POLG mutation. 
  • Modulation of mutagenesis in eukaryotes by DNA replication fork dynamics and quality of nucleotide pools. 
  • Molecular genetics of yeast. 
  • Multifaceted recognition of vertebrate Rev1 by translesion polymerases ζ and κ. 
  • Multiplex-PCR-based recombination as a novel high-fidelity method for directed evolution. 
  • Mutagenic effects of abasic and oxidized abasic lesions in Saccharomyces cerevisiae. 
  • N7-cyanoborane-2'-deoxyguanosine 5'-triphosphate is a good substrate for DNA polymerase. 
  • Nitric oxide synthase-2 regulates mitochondrial Hsp60 chaperone function during bacterial peritonitis in mice. 
  • Observing translesion synthesis of an aromatic amine DNA adduct by a high-fidelity DNA polymerase. 
  • Overlapping specificities of base excision repair, nucleotide excision repair, recombination, and translesion synthesis pathways for DNA base damage in Saccharomyces cerevisiae. 
  • Persistence of herpes simplex virus type-2 genome in a human leukemic cell line. 
  • Persistent DNA damage signaling and DNA polymerase theta promote broken chromosome segregation. 
  • Picornavirus genome replication. Identification of the surface of the poliovirus (PV) 3C dimer that interacts with PV 3Dpol during VPg uridylylation and construction of a structural model for the PV 3C2-3Dpol complex. 
  • Plasmid models for bacteriophage T4 DNA replication: requirements for fork proteins. 
  • Poliovirus replicase stimulation by terminal uridylyl transferase. 
  • Protein-protein and protein-DNA interactions at the bacteriophage T4 DNA replication fork. Characterization of a fluorescently labeled DNA polymerase sliding clamp. 
  • Purification and properties of DNA polymerase-beta from guinea pig liver. 
  • REV1 inhibitor JH-RE-06 enhances tumor cell response to chemotherapy by triggering senescence hallmarks. 
  • REV3L 3'UTR 460 T>C polymorphism in microRNA target sites contributes to lung cancer susceptibility. 
  • RNA∶DNA hybrids initiate quasi-palindrome-associated mutations in highly transcribed yeast DNA. 
  • Reading, writing, and modulating genetic information with boranophosphate mimics of nucleotides, DNA, and RNA. 
  • Recombination between retrotransposons as a source of chromosome rearrangements in the yeast Saccharomyces cerevisiae. 
  • Rev7 loss alters cisplatin response and increases drug efficacy in chemotherapy-resistant lung cancer. 
  • Role of Escherichia coli DNA polymerase I in conferring viability upon the dnaN159 mutant strain. 
  • Roles of RAD6 epistasis group members in spontaneous polzeta-dependent translesion synthesis in Saccharomyces cerevisiae. 
  • Roles of exonucleases and translesion synthesis DNA polymerases during mitotic gap repair in yeast. 
  • Sequence composition and context effects on the generation and repair of frameshift intermediates in mononucleotide runs in Saccharomyces cerevisiae. 
  • Shared genetic pathways contribute to the tolerance of endogenous and low-dose exogenous DNA damage in yeast. 
  • Sliding clamp of the bacteriophage T4 polymerase has open and closed subunit interfaces in solution. 
  • Sliding clamp-DNA interactions are required for viability and contribute to DNA polymerase management in Escherichia coli. 
  • Stabilization of microsatellite sequences by variant repeats in the yeast Saccharomyces cerevisiae. 
  • Stereochemical course of nucleotidyl transfer catalyzed by bacteriophage T7 induced DNA polymerase. 
  • Structural basis of Rev1-mediated assembly of a quaternary vertebrate translesion polymerase complex consisting of Rev1, heterodimeric polymerase (Pol) ζ, and Pol κ. 
  • Structural evidence for the rare tautomer hypothesis of spontaneous mutagenesis. 
  • Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides. 
  • Structural studies of Klenow fragment: an enzyme with two active sites. 
  • Structure of a high fidelity DNA polymerase bound to a benzo[a]pyrene adduct that blocks replication. 
  • Structure of the ubiquitin-binding zinc finger domain of human DNA Y-polymerase eta. 
  • Structures of mismatch replication errors observed in a DNA polymerase. 
  • Studies on DNA replication in the bacteriophage T4 in vitro system. 
  • Suppression of Rev3, the catalytic subunit of Pol{zeta}, sensitizes drug-resistant lung tumors to chemotherapy. 
  • T7-induced DNA polymerase. Characterization of associated exonuclease activities and resolution into biologically active subunits. 
  • T7-induced DNA polymerase. Requirement for thioredoxin sulfhydryl groups. 
  • The 9-1-1 checkpoint clamp physically interacts with polzeta and is partially required for spontaneous polzeta-dependent mutagenesis in Saccharomyces cerevisiae. 
  • The N2-ethylguanine and the O6-ethyl- and O6-methylguanine lesions in DNA: contrasting responses from the "bypass" DNA polymerase eta and the replicative DNA polymerase alpha. 
  • The dCMP transferase activity of yeast Rev1 is biologically relevant during the bypass of endogenously generated AP sites. 
  • The effect of oxidative metabolism on spontaneous Pol zeta-dependent translesion synthesis in Saccharomyces cerevisiae. 
  • The effect of sequence context on spontaneous Polzeta-dependent mutagenesis in Saccharomyces cerevisiae. 
  • The fidelity of DNA replication, particularly on GC-rich templates, is reduced by defects of the Fe-S cluster in DNA polymerase δ. 
  • The in vivo characterization of translesion synthesis across UV-induced lesions in Saccharomyces cerevisiae: insights into Pol zeta- and Pol eta-dependent frameshift mutagenesis. 
  • The mechanism of nucleotide excision repair-mediated UV-induced mutagenesis in nonproliferating cells. 
  • The mismatch repair system promotes DNA polymerase zeta-dependent translesion synthesis in yeast. 
  • The polymerase eta translesion synthesis DNA polymerase acts independently of the mismatch repair system to limit mutagenesis caused by 7,8-dihydro-8-oxoguanine in yeast. 
  • The role of Dbf4-dependent protein kinase in DNA polymerase ζ-dependent mutagenesis in Saccharomyces cerevisiae. 
  • The stabilization of repetitive tracts of DNA by variant repeats requires a functional DNA mismatch repair system. 
  • The structural basis for the mutagenicity of O(6)-methyl-guanine lesions. 
  • The unusual UBZ domain of Saccharomyces cerevisiae polymerase η. 
  • Unconventional ubiquitin recognition by the ubiquitin-binding motif within the Y family DNA polymerases iota and Rev1. 
  • Using Strand Displacing Polymerase To Program Chemical Reaction Networks. 
  • Yeast base excision repair: interconnections and networks. 
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  Keywords of People

  • Weinhold, Kent James, Joseph W. and Dorothy W. Beard Distinguished Professor of Experimental Surgery, Integrative Immunobiology