Author ORCID Identifier
0009-0002-7028-9279
Date of Award
5-4-2023
Degree Type
Thesis
Degree Name
Master of Science (MS)
Department
Chemistry
First Advisor
Markus Germann
Second Advisor
Gregory Poon
Third Advisor
W. David Wilson
Abstract
Ribonucleotide inclusion (rNMP) is the most prevalent form of DNA damage. The incorporation of a single RNP impacts the local structure and dynamics of the double-stranded DNA. Our previous work has shown that for an rG intrusion, the perturbation is strongly on the flanking nucleotide sequences. We have prepared a series of duplexed DNA oligonucleotides all containing a single rG or rC inclusion in different flanking sequence environments for enzymatic and structural studies. For the rG DNA substrates I have examined all possible nearest neighbor flanking sequence combinations. It was found that the reaction-efficiency-with RNase HII strongly depends on the flanking sequence by an up to 20-fold difference. NMR analysis was performed to determine the effects a ribonucleotide misincorporation has on a replication fork. The proximity of an RNP to a replication fork greatly distorts the fraction-south (fs) characteristics of the sugar residues and immediate phosphodiester backbone.
DOI
https://doi.org/10.57709/35355684
Recommended Citation
Brenden, Steven T., "Insights into the Local Structural Impact of Ribonucleotide Inclusion in Duplexed DNA." Thesis, Georgia State University, 2023.
doi: https://doi.org/10.57709/35355684
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