The aryl hydrocarbon receptor (AHR) mediates the toxic effects of halogenated aromatic hydrocarbons (HAHs), including 2,3,7,8-tetrachlorodibenzo-p-dioxin, 2,3,4,7,8-pentachlorodibenzofuran and 2,3,7,8-tetrachlorodibenzofuran. Y322 is believed to play a role in binding-independent activation of AHR by atypical inducers, such as omeprazole. I examined AHR-mediated regulation of and coactivator recruitment to CYP1A1, CYP1B1, HES1 and TiPARP in T-47D and HuH7 cells. All compounds induced expression of each gene in both cell lines, with some temporal differences between the HAHs and omeprazole. Chromatin immunoprecipitation assays demonstrated activator-, cell line- and gene-selectivity in AHR coactivator recruitment. Omeprazole induced AHR degradation which was prevented by MG-132 pre-treatment. Y322 was found to be important for maximal AHR activation by 2,3,7,8-TCDD and 2,3,4,7,8-PeCDF, but required for 2,3,7,8-TCDF and Omp in an AHR-deficient MCF-7 cells. My findings provide further evidence for cell-, gene- and ligand-dependent differences in AHR-mediated gene expression and coactivator recruitment, and a role for Y322 in AHR activation.

Developmental exposure to aryl hydrocarbon receptor (AhR) agonists in fish causes severe defects in the cardiovascular system. However, the effects of acute AhR agonist exposure on the adult fish cardiovascular system as well as the genes mediating developmental AhR-induced deformities remain unclear. In this thesis, two studies were carried out to address these issues. Before experiments could begin, methods for quantitative real-time reverse transcriptase polymerase chain reaction (rtrt-PCR) as well as larval exposure and rearing were developed, validated, and optimized.<p> Following method development, a series of experiments was performed on adult zebrafish (<i>Danio rerio</i>) to assess how expression of cytochrome P450 (CYP) and cyclooxygenase (COX) enzyme mRNA in hepatic and vascular tissues is altered after intraperitoneal injection of AhR agonists benzo(a)pyrene (BaP) or 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) alone and in combination with the purported AhR antagonists resveratrol (Res) or alpha-naphthoflavone (ANF). Both TCDD and BaP induced similar patterns of gene expression in arteries, although with different efficacies, and had slightly different effects in hepatic tissues. Resveratrol was generally without effect in all treatment groups and tissues with the exception of reducing TCDD-induced CYP1C2 in vascular tissues. In contrast, ANF antagonized TCDD- and BaP-induced changes, as well as reduced baseline gene expression in liver. However, in arteries, ANF alone acted as an agonist to increase expression of several of the genes investigated.<p> The second series of experiments involved zebrafish eggs aqueously exposed to BaP or TCDD alone and in combination with Res or ANF. Whole larvae CYP and COX isoform mRNA expression was quantified at 5 and 10 days post-fertilization (dpf), then correlated with developmental phenotype. Both TCDD and BaP caused concentration-dependent AhR-associated deformities with a significant increase in mortalities by 10 dpf and increased CYP1A mRNA expression, while TCDD alone decreased CYP1C2 expression. BaP/ANF co-exposure exhibited the highest rate of deformities and mortalities at both 5 and 10 dpf, caused marked alterations in cardiac and vascular morphology at 10 dpf, and increased CYP1A expression. Furthermore, ANF exhibited additive agonistic effects on gene expression with both BaP and TCDD. Correlation analyses revealed that gene expression at 5 dpf, but not 10 dpf, was strongly linked to abnormal cardiac and vascular phenotypes at 10 dpf with several genes related to cardiac development and one primary gene linked to vascular development.

C3H6 oxidation over a Pt/Al2O3 catalyst with or without NOx present was investigated. In particular, its reaction mechanism was studied using diffuse reflectance infrared spectroscopy (DRIFTS), a reactor system designed for monolith-supported catalysts and a micro-reactor system designed for powder catalysts referred to as CATLAB. These experiments reveal that C3H6 oxidation is inhibited by the presence of NO, NO oxidation is inhibited by the presence of CeH6, and that adsorbed NOx can react with gas phase C3H6. DRIFTS and CATLAB results confirm the reaction between C3H6 and nitrates, which are formed during NOx adsorption, with linear nitrites observed as reaction products. Therefore, a reaction route is proposed for C3H6 oxidation in the presence of NOx, namely, nitrates acting as oxidants. Using NO2 instead of NO, or using a high NOx/C3H6 ratio, which is beneficial for nitrate formation, favors this reaction pathway. Data also showed that Pt is required for this reaction, which suggests the nitrates in proximity to the Pt particles are affected/relevant. Reaction kinetics studies of C3H6 oxidation over Pt/Al2O3 and Pt/SiO2 catalysts were performed in CATLAB using a temperature-programmed oxidation method with different oxidants: O2, NO2 and nitrates. The reaction kinetics of these possible reactions were compared in order to determine which reaction is more important. NOx adsorption does not occur on the SiO2 surface so the reaction between C3H6 and NO2 could be isolated and the effect of nitrates could be observed as well when compared to the results from Pt/Al2O3. The Pt dispersions were determined using H2 chemisorption and were 1.3 and 1.6% for Pt/Al2O3 and Pt/SiO2, respectively. C3H6 oxidation starts at a lower temperature with O2 than with NO2 but the activation energy was lower with NO2. This gives indication that hydrocarbons must be activated first for NO2 to be favored in hydrocarbon oxidation. When the experiment was done with C3H6 and nitrates, the reaction did not occur until NOx started to desorb from the catalyst at higher temperatures, when nitrates become unstable and decompose. Therefore, O2 was added to the system and the reaction began at even lower temperature than with just C3H6 and O2. This proved that hydrocarbons need to be activated in order for surface nitrates to affect C3H6 oxidation and this reaction also resulted in a lower activation energy than with just C3H6 and O2. Nitrate consumption was also observed as less NOx desorbed from the catalyst at the later stage of the temperature ramp compared to the amount desorbed when the catalyst was not exposed to C3H6.

Developmental exposure to aryl hydrocarbon receptor (AhR) agonists in fish causes severe defects in the cardiovascular system. However, the effects of acute AhR agonist exposure on the adult fish cardiovascular system as well as the genes mediating developmental AhR-induced deformities remain unclear. In this thesis, two studies were carried out to address these issues. Before experiments could begin, methods for quantitative real-time reverse transcriptase polymerase chain reaction (rtrt-PCR) as well as larval exposure and rearing were developed, validated, and optimized.<p> Following method development, a series of experiments was performed on adult zebrafish (<i>Danio rerio</i>) to assess how expression of cytochrome P450 (CYP) and cyclooxygenase (COX) enzyme mRNA in hepatic and vascular tissues is altered after intraperitoneal injection of AhR agonists benzo(a)pyrene (BaP) or 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) alone and in combination with the purported AhR antagonists resveratrol (Res) or alpha-naphthoflavone (ANF). Both TCDD and BaP induced similar patterns of gene expression in arteries, although with different efficacies, and had slightly different effects in hepatic tissues. Resveratrol was generally without effect in all treatment groups and tissues with the exception of reducing TCDD-induced CYP1C2 in vascular tissues. In contrast, ANF antagonized TCDD- and BaP-induced changes, as well as reduced baseline gene expression in liver. However, in arteries, ANF alone acted as an agonist to increase expression of several of the genes investigated.<p> The second series of experiments involved zebrafish eggs aqueously exposed to BaP or TCDD alone and in combination with Res or ANF. Whole larvae CYP and COX isoform mRNA expression was quantified at 5 and 10 days post-fertilization (dpf), then correlated with developmental phenotype. Both TCDD and BaP caused concentration-dependent AhR-associated deformities with a significant increase in mortalities by 10 dpf and increased CYP1A mRNA expression, while TCDD alone decreased CYP1C2 expression. BaP/ANF co-exposure exhibited the highest rate of deformities and mortalities at both 5 and 10 dpf, caused marked alterations in cardiac and vascular morphology at 10 dpf, and increased CYP1A expression. Furthermore, ANF exhibited additive agonistic effects on gene expression with both BaP and TCDD. Correlation analyses revealed that gene expression at 5 dpf, but not 10 dpf, was strongly linked to abnormal cardiac and vascular phenotypes at 10 dpf with several genes related to cardiac development and one primary gene linked to vascular development.

<p>Estrogens and the estrogen receptor (ER) have been implicated in the etiology of breast cancer and osteoporosis. However, the mechanisms by which this receptor-ligand complex manifest their regulatory activities in these processes is not completely understood. The development and subsequent definition of the molecular mechanism of action of selective ER modulators (SERMs), compounds with differential relative agonist/antagonist activity, has uncovered an unanticipated complexity in this signaling pathway. Furthermore, these analyses indicat that it is likely that in addition to the classical steroidal estrogens, which exhibit agonist properties, endogenous compounds exist that interact with ER and function as physiological SERMs. Recently, 27-hydroxycholesterol (27HC) was identified as an endogenous ER ligand with tissue-specific estrogenic/anti-estrogenic activities. Indeed, we determined that 27HC exhibited the three basic properties of a SERM: 1) it bound competitively with estradiol (E2) to both genetic subtypes of ER, ER&#945; and ER&#946;; 2) it induced a unique conformation of ER that is likely related to its biological activity; and 3) it displayed tissue-specific ER modulatory activity in the cardiovascular system, breast, and bone. In particular, we undertook a series of in vivo studies to show that a pathological elevation of 27HC was associated with decreased bone quantity, an effect that was partially rescued by E2 supplementation. The ability of 27HC to decrease bone density in the absence of endogenous estrogens suggests that the circulating level of 27HC may be of critical importance in determining osteoporosis risk in post-menopausal women. Interestingly, cholesterol-lowering statins have been shown to improve bone density; thus, given the stoichiometric relationship between circulating cholesterol and 27HC, our data provide a possible explanation for the observed bone sparing actions of this class of drugs. </p><p>In general, it is considered that SERM activity can be explained by the ability to induce differential alterations in ER structure and the impact that this has on the recruitment of functionally distinct cofactors. The results of our studies reveal a much more complex picture and suggest that some SERM pharmacology can be ascribed to actions in pathways that do not include ER. Specifically, we have determined that the SERM 4-hydroxy-tamoxifen (4OHT) can bind to and activate the aryl hydrocarbon receptor (AHR). Given that AHR controls the expression of E2-metabolizing enzymes, our finding that 4OHT regulates AHR in the context of breast cancer could have important pharmacological and pathological implications. Interestingly, our preliminary in vitro data indicate that the ability of 4OHT to inhibit osteoclast (OC) differentiation, and thus aid in preserving bone density in post-menopausal women, is primarily dependent on expression of AHR, not ER. Conversely, the inhibitory activity of raloxifene (RAL), another SERM, on OC differentiation was absolutely dependent on ER. Thus, the activity of 4OHT in bone is likely to be a composite response requiring its actions on both ER and AHR. </p><p>Many new aspects of the estrogen and ER signaling pathways have been uncovered as we learn more about ligands that modulate ER by altering its conformation and thus its ability to engage in protein-protein interactions. Collectively, our findings demonstrate that the intersection between cholesterol metabolism, ER signaling, and the AHR pathway will have important consequences in regulating cellular function, and may be involved in the development or progression of multiple disease states.</p> / Dissertation

Layer-by-layer (LbL) assembly based on ionic interactions has proven to be a versatile route for surface modification and construction of ultrathin nanocomposites. Covalent LbL assembly based on facile ‘click’ covalent bond formation is an effective alternative, especially for the applications where a more robust ultrathin films or nanocomposites is desired. The subject of this dissertation focuses on the design of three different covalent LbL assemblies and their applications on conductive thin films, superhydrophobic surfaces, and solute responsive surfaces, respectively. Surface modification of PE substrates using covalent LbL assembly with PEI and Gantrez is a successful route to prepare a surface graft. The procedure is relative easy, fast and reproducible. Grafting multiple layers of PEI/Gantrez to the PE powder surface provided excellent coverage and promoted stable LbL film growth and excellent adhesion. This carbon black (CB) coated powder was compression molded into films, and their conductivity was measured, which revealed a percolation threshold below 0.01 wt % CB for the PEI-grafted system. Electrical conductivity of 0.2 S/cm was achieved with only 6 wt % CB, which is exceptional for a CB-filled PE film. Direct amination of MWNTs with PEI is a convenient and simple method leading to highly functionalized product that contains 6-8 % by weight PEI. Superhydrophobic PE films can be formed either from ionic LbL self-assembly of MWNT-NH-PEIs and poly(acrylic acid) or from covalent LbL self-assembly of MWNTNH- PEIs and Gantrez when the final graft is acrylated with octadecanoic acid. While the ionically assembled nanocomposite graft is labile under acid, the covalently assembled graft is more chemically robust. Responsive surfaces with significant, reversible, reproducible wettability changes can be prepared by covalent LbL grafting using PNIPAM-c-PNASI and aminated silica nanoparticles. A 65º ΔΘ value was observed with water vs. 1.4 M Na2SO4. The prepared film shows a high surface roughness of ~300 nm, which contributes to the large solute responsive ΔΘ values. The surfaces are reconfigurable in different solute conditions and that the changes in water contact angle are likely due to combination of change in surface roughness along with swell and intercalation of the solute ions into the PNIPAM surface.

In this field-scale study, air sparging (AS) system was applied at a petroleum-hydrocarbon spill site to remediate contaminated soil and groundwater in situ. The objective of this study was to evaluate the effectiveness of the AS system on volatile organic compounds (VOC) removal via the volatilization mechanism. Moreover, the AS system would also enhance the in situ bioremediation process due to the increased oxygen concentration in the subsurface. Results from the preliminary site characterization show that high concentrations of benzene and toluene were present in the subsurface in the western part of the site. Up to 15.62 and 30,957 mg/Kg of benzene and toluene were detected in soil samples, respectively. Moreover, up to 0.068 and 4.8 mg/L of benzene and toluene were observed in groundwater samples, respectively. The following remediation activities were conducted during the one-year investigation and remediation period: 1. Construction of four recovery wells were for light non-aqueous phase liquid (LNAPL) and contaminated groundwater extraction to prevent the expansion of VOC plume. The extracted groundwater was delivered to the wastewater treatment plant for treatment before discharge. 2. Installation of ten air sparging wells to enhance the removal of VOC through volatilization and biodegradation processes. 3. Conduction of (1) soil gas survey, (2) soil and groundwater sampling and analyses, and microbial enumeration periodically to evaluate the effectiveness of AS on VOC removal. Results from the field-scale study indicate that the AS system is able to effectively contain the plume. This can be confirmed by the following findings: (1) decrease in VOC concentrations in both soil and groundwater, (2) increase in carbon dioxide and increase in oxygen concentrations in the soil gas samples, and (3) increase in bacterial population in soil samples. Results from this study indicate that AS system can effectively contain the plume and manage this petroleum hydrocarbon spill site.

The late Permian Queen Formation (115 m thick) is a succession of mixed clastics, carbonates and evaporites deposited in the northeastern margin of Central Basin Platform of the Permian Basin, west Texas, USA. Depositional facies, stacking patterns of cyclic facies associations and statistical correlation of rock property variations define geologic controls on reservoir rock properties. Textural, compositional, petrophysical and diagenetic variations within lithofacies exhibit systematic changes with stratigraphic position, which can be related to base level changes that were controlled by high-frequency, low-amplitude, sea level fluctuations during a greenhouse period. Ten lithofacies record variations in clastic input, shallow marine carbonate production, and evaporate precipitation in sabhkas and salinas. Four different types of lithofacies associations define: (1) transgressive deltaic deposits; (2) upward-shallowing evaporite and carbonate tidal-flat deposits; (3) transgressive beach ridge and sand flat deposits; and (4) upward-shallowing evaporite salina-sabhka deposits. Stacking patterns of lithofacies associations define sixteen depositional cycles that can be grouped into eight cycle sets. Cycle sets in turn are grouped to define two high-frequency sequences. Sequence 1 progresses from fluvial to carbonate tidal flat cycles. Sequence 2 consists of salina-dominated upward-shoaling cycles. Lateral continuity of cycles indicates restricted sedimentation on low-accommodation inner platform areas updip of prograding highstand platform-margin carbonate buildups, and a long-term trend of accommodation decrease. The Queen Formation contains two reservoir types; (1) siliciclastic reservoirs capped by evaporites and (2) layer-cake carbonate reservoirs. Of the four reservoir zones identified, R11 in lowstand fluvial-deltaic deposits has relatively little cement and the best reservoir characters.

In the northern Gulf of Mexico, seafloor hydrocarbon fluid and gas seepage is an ubiquitous process on the continental margin. Although seafloor seepage and seep-related features (mud volcanoes, carbonate formation) have been studied for many years, little is known about their mechanisms of formation and the relationship of sub-surface structure to current seep activity. In this study, we examined three seafloor seeps in the Garden Banks and Mississippi Canyon areas using exploration and reprocessed 3D multi-channel seismic (MCS) data augmented with side-scan sonar (Garden Banks site) to characterize hydrocarbon seep activity and develop an understanding of the processes that led to their formation. Side-scan sonar data provided high resolution coverage of the seafloor while the exploration seismic data were used to image near and deep sub-surface features. Additionally, the 3D amplitude extraction maps were useful in delineating amplitude anomalies often associated with seep related activity. The reprocessed 3D seismic data were used to map in greater detail near seafloor features and amplitude anomalies. Using remote sensing geophysical data, we were effectively able to map sub-surface features such as salt topography, seep-related faults and geophysical indicators of hydrocarbons and correlate them with seafloor amplitude anomalies and fault traces in order to characterize seep activity level. The southern mud volcano in the Garden Banks site is characterized as an established high flux seep vent owing to signs of active seepage and sediment flows as well as the build-up of hard grounds. The northern mud volcano in the area, with greater hard ground build-up and fewer signs of active seepage represents an established low flux seep vent. In the Mississippi Canyon area, the data suggest that the seep mound can be characterized as a mature high flux vent due to the extensive build-up of hard ground, evidence of gas hydrates and signs of active seepage and sediment flows. The mechanisms of formation are similar between the two study sites. Upwelling salt appears to have fractured the sub-surface leading to the formation of fault induced depressions. Mapping of geophysical indicators of hydrocarbons implies that hydrocarbon migration is occurring along bedding planes to the fault systems underlying the depressions. Here they appear to migrate vertically to the seafloor creating the topographic features and seafloor amplitude anomalies that characterize the seeps

Cancer is a leading cause of human mortality worldwide, and is expected to soon become the overall leading cause of death in the United States. Some cancers are hormone-related, including the sex-specific cancers of the breast (predominantly in women) and prostate (in men). In both cases, early stage tumors are responsive to inhibitory endocrine-based therapies. However, both cancers progress to hormone-nonresponsive states and this is in part due to altered properties of the primary nuclear hormone receptor signaling pathway (estrogen receptor [ER] in breast; androgen receptor [AR] in prostate). Other nuclear receptors are thus being investigated as therapeutic targets due to their crosstalk with hormone receptor pathways and these include the aryl hydrocarbon receptor (AhR), peroxisome proliferator activated receptor γ(PPARγ, retinoic acid receptor and retinoid X receptor (RAR/RXR), and vitamin D receptor (VDR). Previous studies have demonstrated that the AhR mediates chemoprotective, antiestrogenic, and tumoristatic effects in experimental models, and relatively non-toxic selective aryl hydrocarbon receptor modulators (SAhRMs) have been developed. Studies in this dissertation have investigated the therapeutic properties of a new class of compounds related to the SAhRM 3,3‘-diindolylmethane (DIM) in models of breast cancer. Additionally, the potential therapeutic role of the AhR in human prostate cancer cells has been investigated. Several ring- and methylene-substituted DIMs exhibited antiestrogenic and tumoristatic activities in breast cancer cells and in carcinogen-induced rat mammary tumors. At least some of the methylene-substituted DIMs act through PPARγ. The AhR is expressed in LNCaP and iv 22Rv1 prostate cancer cells and AhR agonists inhibit cell growth and AR-induced transactivation through pathways independent of androgen receptor downregulation.