Thesis (Ph. D.)--Northeastern University, 2008. / Title from title page (viewed March 9, 2009) Graduate School of Arts and Sciences, Dept. of Chemistry and Chemical Biology. Includes bibliographical references.

Thesis (Ph. D. in Chemistry)--Vanderbilt University, Dec. 2007. / Title from title screen. Includes bibliographical references.

Thesis (Ph. D.)--West Virginia University, 2005. / Title from document title page. Document formatted into pages; contains xi, 323 p. : ill. (some col.). Vita. Includes abstract. Includes bibliographical references (p. 191-211).

Thesis (Ph. D.)--West Virginia University, 2006. / Title from document title page. Document formatted into pages; contains xiv, 139 p. : ill. (some col.). Includes abstract. Includes bibliographical references (p. 129-138).

Accurate characterization of risk of adverse ecological effects related to contaminated sediment presents a particularly difficult challenge. A series of studies has been conducted to investigate the utility of various tools for assessment of sediment toxicity. The goal of this research was to provide information which could help increase the accuracy with which predictions of toxicity could be made at hazardous sites. A calibration study was conducted using model PAHs, PCBs, a binary PAH mixture and a coal-tar mixture. This study was a collaborative effort among five university-based Superfund Research Programs (SRPs). Each program, with the help of funding through the NIEHS Superfund Research Program, has developed a chemical-class specific assay to estimate toxicity of contaminants in sediment. This suite of bioassays expands the range of data typically obtained through the use of standard aquatic toxicity assays. A series of caged in situ exposure studies has been conducted using juvenile Chinook salmon and Pacific staghorn sculpin in the Lower Duwamish Waterway. The study aimed to investigate the utility of selected biomarkers in evaluating the relationship between contaminants present in environmental samples and response in receptors following an in situ caged exposure. Results found that DNA adducts detected in exposed fish were significantly higher than controls in 2004 and 2006, and DNA adducts appear to be a reliable indicator of exposure, although no dose-response relationship was present. Western blot analysis of CYP1A1 was not indicative of exposure levels. The final study conducted was concerned with evaluating the utility of using solid phase microextraction (SPME) fibers in situ to evaluate contaminated sediment. Levels of PAHs and PCBs in sediment often exceeded sediment quality guidelines; however, results from aquatic toxicity bioassays using Hyalella azteca were mostly negative, thus levels of contaminants detected on SPME fibers could not be associated with adverse effects in Hyalella. However, regression analysis of total PAHs present in sediment and levels of PAHs detected in porewater SPME fiber samplers, which were placed 5 cm into the sediment for 30 days, revealed a strongly correlated linear relationship (R2 = .779). Normalization of the sediment data to total organic carbon was performed to determine if the trend would remain present, and the linear relationship was again confirmed (R2 =.709).

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DNA damage is important to understand since it has the potential to lead to disease if unrepaired. In particular, bulky C8 guanine adducts (addition products) are known to induce a variety of mutations due to their conformational flexibility. C-linked C8-phenoxyl-deoxyguanosine adducts (PhOH-dG) have been poorly understood despite their potential for genotoxicity. This thesis systematically develops a computational model to predict the conformational and base-pairing preferences of PhOH-dG by gradually increasing the size of the system. The structure of PhOH-dG in DNA is determined, where the bulky C8 group induces a syn conformation of the base similar to other C8-adducts. A stabilized guanine mismatch is identified for the syn adducts, which implies that the primary mechanism of genotoxicity may be base-substitution mutations resulting in G→C transversions. This thesis has contributed to a growing body of literature dedicated to understanding the role of conformational heterogeneity in the mutagenicity of bulky C8-adducts. / xix, 192 leaves : ill. (some col.) ; 29 cm

Doctor of Philosophy / Department of Chemistry / Stefan Bossmann / Estrogen-derived DNA adducts in human could be the initiating step of breast and prostate cancer, as the scientific literature suggests. Previous studies demonstrated that 4-hydroxy-estrone (estradiol)-1-N3Adenine and 4-hydroxy-estrone (estradiol)-1-N7Guanine were the most abundant adducts found in urine of human subjects. Sensitive detection of these adducts in urine samples could lead to better breast and prostate cancer risk assessment. The standard adducts were synthesized and characterized by NMR and mass spectrometry. Since these adducts are not fluorescent at room temperature an aminomethyl (-CH2NH2) linker was introduced at the C-17 position for derivatization with fluorescence label. This linker allowed to attach highly fluorescent water soluble quantum dots (QDs) for indirect adduct detection. A direct gram-scale synthesis of highly fluorescent, photostable water soluble QDs was executed by developing a new class of 4,4’-bipyridinium salt based twin ligands with 85% and 15% of carboxylic acid and maleimide termini, respectively. These ligands not only stabilized the QDs in water but also provided versatile linkers for two labeling strategies. The twin ligands were afforded by a facile synthesis through SN2 nucleophilic substitution reaction. Labeling of adducts was achieved via a covalent coupling between the (-CH2NH2) linker and the carboxyl (-COOH) terminal ligand on the QDs. However, ELISA experiments utilizing an IgM antibody didn’t reveal any measurable signal from adduct-QD complexes suggesting that one QD is bound to a large number of adducts through –COOH terminal ligands present on QD surface. To explore the binding capabilities of QDs in more detail, a maleimide terminal ligand (a twin partner on the QDs) was synthesized to explore the thiol (-SH) functionality of thiopyrene. Preliminary ELISA showed that these QDs gave detectable fluorescent signal originating from the [pyrene-S-QD] ̶ 8E11 monoclonal antibody (mAb) complex when QD was selectively excited at 470 nm. This clearly indicates that it is necessary to develop a strategy for a distinct 1:1 labeling procedure between QD and the adduct of interest. In addition, IgG (instead of IgM) antibodies should be developed for biosensor application. The latter could afford binding of mAb in upright position, leading to an increase in surface density of mAb and better detection limit.