Research Topics | ASHOK BHAGWATSummaryAffiliation: Wayne State University Country: USA Publications
Research Grants
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Publications
Cooperation and competition in mismatch repair: very short-patch repair and methyl-directed mismatch repair in Escherichia coliAshok S Bhagwat
Department of Chemistry, Wayne State University, Detroit, MI 48202, USA
Mol Microbiol 44:1421-8. 2002..We review here recent information about the biochemistry of both repair processes and describe the balancing act performed by cells to optimize the competing processes during different phases of the bacterial life cycle...
Phylogenomic identification of five new human homologs of the DNA repair enzyme AlkBMichal A Kurowski
Bioinformatics Laboratory, International Institute of Molecular and Cell Biology, Trojdena 4, 02 109 Warsaw, Poland
BMC Genomics 4:48. 2003..This discovery was based on the prediction made by Aravind and Koonin that AlkB is a member of the 2OG-Fe2+ oxygenase superfamily...- DNA-cytosine deaminases: from antibody maturation to antiviral defenseAshok S Bhagwat
Department of Chemistry, Wayne State University, 443 Chemistry Building, Detroit, MI 48202 3489, USA
DNA Repair (Amst) 3:85-9. 2004..This article discusses the many questions raised regarding the role of these enzymes in protecting cells against infections, and about their possible roles in genome evolution and carcinogenesis... - Protection of DNA by alpha/beta-type small, acid-soluble proteins from Bacillus subtilis spores against cytosine deaminationAnjum Sohail
Department of Chemistry, Wayne State University, Detroit, Michigan 48202, USA
Biochemistry 41:11325-30. 2002.... - Mismatch repair in methylated DNA. Structure and activity of the mismatch-specific thymine glycosylase domain of methyl-CpG-binding protein MBD4Peiying Wu
Department of Biochemistry, Emory University, Atlanta, Georgia 30322, USA
J Biol Chem 278:5285-91. 2003..Modeling studies suggest the mismatched target nucleotide will be flipped out into the active site where candidate residues for catalysis and substrate specificity are present... - Human activation-induced cytidine deaminase causes transcription-dependent, strand-biased C to U deaminationsAnjum Sohail
Department of Chemistry, Wayne State University, Detroit, MI 48202, USA
Nucleic Acids Res 31:2990-4. 2003..It suggests that AID may be recruited to variable genes through transcription without the assistance of other proteins and that the strand bias in SHM may be caused by the preference of AID for the non-transcribed strand... - Lack of dependance of transcription-induced cytosine deaminations on protein synthesisSanath Kumar Mokkapati
Department of Chemistry, Wayne State University, Detroit, MI 48202, USA
Mutat Res 508:131-6. 2002..Our results show that TIM is not dependent on efficient translation of mRNA and this helps eliminate certain models concerning the mechanism underlying TIM... - Sequence-dependent enhancement of hydrolytic deamination of cytosines in DNA by the restriction enzyme PspGIMichael Carpenter
Department of Chemistry, Wayne State University, Detroit, MI 48202 USA
Nucleic Acids Res 34:3762-70. 2006..This prediction was validated by modeling the structure of PspGI-DNA complex based on the structure of the related enzyme Ecl18kI which is known to cause base-flipping... - Transcription promotes guanine to thymine mutations in the non-transcribed strand of an Escherichia coli geneJoanna Klapacz
Department of Chemistry, Wayne State University, Detroit, MI 48202, USA
DNA Repair (Amst) 4:806-13. 2005..These results suggest that the magnitudes of individual base substitutions and their relative numbers in other studies of mutational spectra may also be affected by transcription... - Evaluation of molecular models for the affinity maturation of antibodies: roles of cytosine deamination by AID and DNA repairMala Samaranayake
Department of Chemistry, Wayne State University, Detroit, Michigan 48202, USA
Chem Rev 106:700-19. 2006 - Transcription increases methylmethane sulfonate-induced mutations in alkB strains of Escherichia coliDouglas Fix
Department of Microbiology, Southern Illinois University, Carbondale, IL 62901, USA
DNA Repair (Amst) 7:1289-97. 2008..We propose that this is the underlying cause of its increased sensitivity to MMS and suggest that transcriptionally active DNA may be a preferred target for the action of alkylating agents that prefer single-stranded DNA... - Is AID a monomer in solution?Ashok S Bhagwat
DNA Repair (Amst) 7:349-50; author reply 351-2. 2008 - Transcription-dependent increase in multiple classes of base substitution mutations in Escherichia coliJoanna Klapacz
Department of Chemistry, Wayne State University, Detroit, Michigan 48202, USA
J Bacteriol 184:6866-72. 2002..C-to-T. A transversions dominated the spectrum in cells transcribing the gene. These results suggest that high levels of transcription promote many different spontaneous base substitutions in E. coli... - Mismatch uracil glycosylase from Escherichia coli: a general mismatch or a specific DNA glycosylase?Rory J O'Neill
Imperial College London, Department of Biological Sciences, Sir Alexander Flemming Building, South Kensington, London SW7 2AZ, United Kingdom
J Biol Chem 278:20526-32. 2003..This comparison of different substrates under single turnover conditions provides a rational basis for comparing substrates of MUG and we relate these conclusions to the known crystal structures of the enzyme and its catalytic mechanism... - A nomenclature for restriction enzymes, DNA methyltransferases, homing endonucleases and their genesRichard J Roberts
New England Biolabs, Beverly, MA 01915, USA
Nucleic Acids Res 31:1805-12. 2003..It provides explicit categories for the many different Type II enzymes now identified and provides a system for naming the putative genes found by sequence analysis of microbial genomes... - DNA base flipping by both members of the PspGI restriction-modification systemMichael A Carpenter
Department of Chemistry, Wayne State University, 5101 Cass Avenue, Detroit, MI 48202, USA
Nucleic Acids Res 36:5417-25. 2008..We discuss the implications of these results for DNA binding by these enzymes and their evolutionary origin...
Research Grants
- 7th Annual Midwest DNA Repair SymposiumASHOK BHAGWAT; Fiscal Year: 2005..This Symposium will provide excellent opportunity to those scientists who are unable to attend conferences on either U.S. coast because of the distance or the cost, to participate in a major conference. ..
- Transcription-induced MutationsASHOK BHAGWAT; Fiscal Year: 2007..Further, this system will be used to study the roles played by various DNA repair enzymes, DNA polymerases and accessory proteins in shaping the strand bias and spectrum of mutations responsible for antibody maturation. ..
- Discovering New Human DNA Repair Genes by BioinformaticsASHOK BHAGWAT; Fiscal Year: 2007..This integrated prediction-validation approach should be superior to a purely bioinformatics or a purely biochemical approach and may serve as a paradigm for searching biochemical functions in genomes of all organisms. ..
- Improving Phenylbutyrate-based Anticancer TherapyASHOK BHAGWAT; Fiscal Year: 2005..This work will create the tools necessary for the monitoring of tumor cells in live animals when they are treated with PB as part of combination chemotherapy. ..
- TRANSCRIPTION--INDUCED MUTATIONSASHOK BHAGWAT; Fiscal Year: 2001..coli. The results from this work should create a new perspective on the action of mutagens and provide a greater understanding of the process of transcript elongation. ..