We propose to investigate the biochemical basis of mutagenesis. Bacteriophage T4, have normal and aberrant DNA polymerases (mutators and antimutators), will be used as a model system for study. Experiments, in vitro and in vivo, are designed to measure individual steps in the mutational pathways A:T yields ( reversibily) G:C using the base analogues 2-aminopurine and 5-bromodeoxyuridine as biochemical and genetic probes. A model requiring base mispairing and deoxynucleoside triphosphate pool size perturbations is proposed to account for base analogue induced mutagenesis. The model provides a general framework to relate deoxynucleoside triphosphate pool size measurements in vivo, made in T4 mutator, wild type, and antimutator genetic backgrounds, to measurements in vitro for nucleotide analogue mispairing frequencies. These experimental results in concert with model based predictions will allow us to test models of DNA synthesis fidelity in a stringent quantitative manner. The experiments should provide a clearer picture of how organisms edit errors which occur during DNA synthesis. Thus, in a general sense, this proposal is concerned with cellulose mechanisms used to maintain genetic integrity through successive generations. The potential significance of the results should have broad application in the areas of carcinogenesis, ageing, and evolution.
Pham, Phuong; Afif, Samir A; Shimoda, Mayuko et al. (2017) Activation-induced deoxycytidine deaminase: Structural basis for favoring WRC hot motif specificities unique among APOBEC family members. DNA Repair (Amst) 54:8-12 |
Petruska, John; Goodman, Myron F (2017) Relating DNA base-pairing in aqueous media to DNA polymerase fidelity. Nat Rev Chem 1: |
Pham, Phuong; Afif, Samir A; Shimoda, Mayuko et al. (2016) Structural analysis of the activation-induced deoxycytidine deaminase required in immunoglobulin diversification. DNA Repair (Amst) 43:48-56 |
Goodman, Myron F (2016) Better living with hyper-mutation. Environ Mol Mutagen 57:421-34 |
Jaszczur, Malgorzata; Bertram, Jeffrey G; Robinson, Andrew et al. (2016) Mutations for Worse or Better: Low-Fidelity DNA Synthesis by SOS DNA Polymerase V Is a Tightly Regulated Double-Edged Sword. Biochemistry 55:2309-18 |
Oertell, Keriann; Harcourt, Emily M; Mohsen, Michael G et al. (2016) Kinetic selection vs. free energy of DNA base pairing in control of polymerase fidelity. Proc Natl Acad Sci U S A 113:E2277-85 |
Goodman, Myron F; McDonald, John P; Jaszczur, Malgorzata M et al. (2016) Insights into the complex levels of regulation imposed on Escherichia coli DNA polymerase V. DNA Repair (Amst) 44:42-50 |
Robinson, Andrew; McDonald, John P; Caldas, Victor E A et al. (2015) Regulation of Mutagenic DNA Polymerase V Activation in Space and Time. PLoS Genet 11:e1005482 |
Senavirathne, Gayan; Bertram, Jeffrey G; Jaszczur, Malgorzata et al. (2015) Activation-induced deoxycytidine deaminase (AID) co-transcriptional scanning at single-molecule resolution. Nat Commun 6:10209 |
Mak, Chi H; Pham, Phuong; Afif, Samir A et al. (2015) Random-walk enzymes. Phys Rev E Stat Nonlin Soft Matter Phys 92:032717 |
Showing the most recent 10 out of 146 publications