Thesis (Ph. D.)--Northeastern University, 2008. / Title from title page (viewed Mar. 3, 2009). Graduate School of Arts and Sciences, Dept. of Chemistry and Chemical Biology. Includes bibliographical references (p. 156-170).

Pyrrolizidine alkaloids are cytotoxic, carcinogenic, and anti-carcinogenic in vivo and in vitro, and they produce many hazardous effects in humans and animals. Pyrrolizidine alkaloids (PAs) also cross-link with DNA and/or protein. However, whether such cross-linking is important to the toxic action of PAs is not known. In addition, the exact mechanism underlying these DNA cross-links or cytotoxicity is also not clear. In three separate studies, I characterized the nature of PA-induced DNA cross-links and the relationships between PA structures and cross-linking potency. In the first study (Chapter II), I found that cross-linking potency of PA congeners coincided with their abilities to cause cytopathologic effects. Macrocyclic a,p-unsaturated diesters PAs and their pyrrolic metabolites were the most potent inhibitors of colony formation, and inducers of cytopathologic changes and megalocyte formation. The macrocyclic α, β-saturated diester PA and open diesters PAs slightly inhibited colony formation, and slightly changed cell morphology. Retronecine and indicine N-oxide were completely inactive. In the next study (Chapter Ill), I found that pyrrolic macrocyclic metabolites were more potent DNA cross-linkers than their parent compounds as determined by alkaline elution. The pyrroles of the macrocyclic diester PAs were potent DNADNA (inter- and/or intra) cross-linkers in BstEll-digested λ-phage DNA or pBR322 plasmid DNA but dehydroretronecine and indicine N-oxide were not. I also examined which DNA sequences were more susceptible to PA-induced cross-links by using a series of restriction endonucleases to determine sequence specificity. The most favorable cross-linking site for PAs appeared to be 5'd(GG) and 5'-d(GA) although other sites, 5'-d(CC) or 5'-d(CG), might be also preferable cross-linking targets. In the next study (Chapter IV), I characterized the nature of DNA-protein interactions induced by PAs, because I found in previous studies that PA-induced cross-links are largely protein associated. In PA or pyrrolic PA exposed cells, cross-linked proteins with molecular weights 40 - 60 kD were detected. Two-dimensional electrophoretic analysis revealed that these proteins were probably acidic in nature. In an in vitro system utilizing pBR322 or Bst Ell-digested λ-phage DNA. dehydrosenecionine induced DNAprotein cross-links with BSA, indicating that such interactions might be related to amino acid composition of protein. These results confirmed that PA-induced DNA cross-links (DNA-DNA, DNA-protein cross-links) are influenced by three structural features: the C1 ,2 unsaturation of pyrrolizidine ring, α, β-unsaturation, and size of the macrocyclic diester ring. The ability to form cross-links was closely related to the known toxic potencies of these PAs. From this research, I also conclude that DNA crosslinking is the most critical event leading to PA-related diseases and that crosslinking is due to pyrrolic metabolites of PAs, not via a common metabolite as was once thought.

The main goal of this thesis was to develop new methods and knowledge that will explain and predict species differences in sensitivity to dioxin-like compounds (DLCs) in birds. The important achievements and results obtained from the four experimental chapters of this thesis are summarized as follow: (1) an efficient luciferase reporter gene (LRG) assay was developed for use with 96-well cell culture plates; (2) the results obtained from LRG assay were shown to be highly correlated to available in ovo toxicity data; (3) amino acids at positions 324 and 380 within the aryl hydrocarbon receptor 1 ligand binding domain (AHR1 LBD) were shown to be responsible for reduced Japanese quail (Coturnix japonica) AHR1 activity to induce a dioxin-responsive reporter gene in comparison to chicken (Gallus gallus domesticus), and ring-necked pheasant (Phasianus colchicus) AHR1 in response to different DLCs; (4) AHR1 LBD sequences of 86 avian species were studied and differences at amino acid sites 256, 257, 297, 324, 337 and 380 were identified. It was discovered that only positions 324 and 380 play a role in AHR1 activity to induce a dioxin-responsive gene; (5) in COS-7 cells expressing chicken AHR1, 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) and 2,3,4,7,8-pentachlorodibenzofuran (PeCDF) are equipotent inducers of the reporter gene and bind with similar affinity to chicken AHR1, however, in the cells expressing pheasant, Japanese quail and common tern (Sterna hirundo) AHR1, PeCDF is a stronger inducer than TCDD. PeCDF also binds with higher affinity to pheasant and quail AHR1 than TCDD. The results of this thesis show that embryo lethal effect of DLCs in avian species can be predicted by use of two new non-lethal methods: (1) the LRG assay and (2) determination of the identity of the amino acids at positions 324 and 380. The findings and methods described in this thesis will be of use for environmental risk assessments of DLCs.

The main goal of this thesis was to develop new methods and knowledge that will explain and predict species differences in sensitivity to dioxin-like compounds (DLCs) in birds. The important achievements and results obtained from the four experimental chapters of this thesis are summarized as follow: (1) an efficient luciferase reporter gene (LRG) assay was developed for use with 96-well cell culture plates; (2) the results obtained from LRG assay were shown to be highly correlated to available in ovo toxicity data; (3) amino acids at positions 324 and 380 within the aryl hydrocarbon receptor 1 ligand binding domain (AHR1 LBD) were shown to be responsible for reduced Japanese quail (Coturnix japonica) AHR1 activity to induce a dioxin-responsive reporter gene in comparison to chicken (Gallus gallus domesticus), and ring-necked pheasant (Phasianus colchicus) AHR1 in response to different DLCs; (4) AHR1 LBD sequences of 86 avian species were studied and differences at amino acid sites 256, 257, 297, 324, 337 and 380 were identified. It was discovered that only positions 324 and 380 play a role in AHR1 activity to induce a dioxin-responsive gene; (5) in COS-7 cells expressing chicken AHR1, 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) and 2,3,4,7,8-pentachlorodibenzofuran (PeCDF) are equipotent inducers of the reporter gene and bind with similar affinity to chicken AHR1, however, in the cells expressing pheasant, Japanese quail and common tern (Sterna hirundo) AHR1, PeCDF is a stronger inducer than TCDD. PeCDF also binds with higher affinity to pheasant and quail AHR1 than TCDD. The results of this thesis show that embryo lethal effect of DLCs in avian species can be predicted by use of two new non-lethal methods: (1) the LRG assay and (2) determination of the identity of the amino acids at positions 324 and 380. The findings and methods described in this thesis will be of use for environmental risk assessments of DLCs.

The main goal of this thesis was to develop new methods and knowledge that will explain and predict species differences in sensitivity to dioxin-like compounds (DLCs) in birds. The important achievements and results obtained from the four experimental chapters of this thesis are summarized as follow: (1) an efficient luciferase reporter gene (LRG) assay was developed for use with 96-well cell culture plates; (2) the results obtained from LRG assay were shown to be highly correlated to available in ovo toxicity data; (3) amino acids at positions 324 and 380 within the aryl hydrocarbon receptor 1 ligand binding domain (AHR1 LBD) were shown to be responsible for reduced Japanese quail (Coturnix japonica) AHR1 activity to induce a dioxin-responsive reporter gene in comparison to chicken (Gallus gallus domesticus), and ring-necked pheasant (Phasianus colchicus) AHR1 in response to different DLCs; (4) AHR1 LBD sequences of 86 avian species were studied and differences at amino acid sites 256, 257, 297, 324, 337 and 380 were identified. It was discovered that only positions 324 and 380 play a role in AHR1 activity to induce a dioxin-responsive gene; (5) in COS-7 cells expressing chicken AHR1, 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) and 2,3,4,7,8-pentachlorodibenzofuran (PeCDF) are equipotent inducers of the reporter gene and bind with similar affinity to chicken AHR1, however, in the cells expressing pheasant, Japanese quail and common tern (Sterna hirundo) AHR1, PeCDF is a stronger inducer than TCDD. PeCDF also binds with higher affinity to pheasant and quail AHR1 than TCDD. The results of this thesis show that embryo lethal effect of DLCs in avian species can be predicted by use of two new non-lethal methods: (1) the LRG assay and (2) determination of the identity of the amino acids at positions 324 and 380. The findings and methods described in this thesis will be of use for environmental risk assessments of DLCs.

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Listeria monocytogenes is known to cause epidemic and sporadic cases of listeriosis. The present study investigated its occurrence, antibiotic sensitivity and serotyping of the organism in foods in various retail outlets in Gaborone, Botswana. Food samples were obtained randomly from selected supermarkets and street vendors from 5 geographical areas in Gaborone from May to September 2007. Listeria monocytogenes was isolated and positively identified by using morphological and biochemical tests. Furthermore, the organism was identified using multiplex PCR. From a total of 1324 food samples tested 57(4.3 %) were positive for Listeria monocytogenes. Out of the 57 isolates, 7 (12.3%), 3 (5.3%), 0 (0.0%), 27 (47.4%) and 20 (35.1%) were isolated from cheese, raw milk, meat (biltong), frozen cabbage and salad (coleslaw). From the 5 geographical areas selected for sampling in this study, Gaborone south recorded the most number 19 (33.3%) of L. monocytogenes isolates while Gaborone west recorded the least, 7 (12.3%). Most of the isolates (49%) belonged to serogroups 4a, 4b and 4c. These isolates were found mostly in cabbage. This was followed by serogroups 4b, 4d and 4e which comprised 30% of the isolates. This is in contrast to most studies that have found serotypes 1/2a and 1/2b to be the most common serotypes in food. That serotype 4b was detected in this study was a significant finding, because this is the number one serotype associated with human listeriosis. REP-PCR was used as a typing tool to characterize the L. monocytogenes strains. The method showed great promise as all of the L. monocytogenes strains were typable using this method, with good correlation between the REP-PCR profiles and the antibiotic resistant profiles. The findings reveal the presence of multi-drug resistant and virulent L. monocytogenes serotype 4b in ready to eat food in Gaborone, Botswana and highlight the need for education and training in food safety programmes. / Life and Consumer Sciences / M. Sc. (Microbiology (Life Sciences))

Listeria monocytogenes is known to cause epidemic and sporadic cases of listeriosis. The present study investigated its occurrence, antibiotic sensitivity and serotyping of the organism in foods in various retail outlets in Gaborone, Botswana. Food samples were obtained randomly from selected supermarkets and street vendors from 5 geographical areas in Gaborone from May to September 2007. Listeria monocytogenes was isolated and positively identified by using morphological and biochemical tests. Furthermore, the organism was identified using multiplex PCR. From a total of 1324 food samples tested 57(4.3 %) were positive for Listeria monocytogenes. Out of the 57 isolates, 7 (12.3%), 3 (5.3%), 0 (0.0%), 27 (47.4%) and 20 (35.1%) were isolated from cheese, raw milk, meat (biltong), frozen cabbage and salad (coleslaw). From the 5 geographical areas selected for sampling in this study, Gaborone south recorded the most number 19 (33.3%) of L. monocytogenes isolates while Gaborone west recorded the least, 7 (12.3%). Most of the isolates (49%) belonged to serogroups 4a, 4b and 4c. These isolates were found mostly in cabbage. This was followed by serogroups 4b, 4d and 4e which comprised 30% of the isolates. This is in contrast to most studies that have found serotypes 1/2a and 1/2b to be the most common serotypes in food. That serotype 4b was detected in this study was a significant finding, because this is the number one serotype associated with human listeriosis. REP-PCR was used as a typing tool to characterize the L. monocytogenes strains. The method showed great promise as all of the L. monocytogenes strains were typable using this method, with good correlation between the REP-PCR profiles and the antibiotic resistant profiles. The findings reveal the presence of multi-drug resistant and virulent L. monocytogenes serotype 4b in ready to eat food in Gaborone, Botswana and highlight the need for education and training in food safety programmes. / Life and Consumer Sciences / M. Sc. (Microbiology (Life Sciences))

Ionic liquids are salts that are in liquid form at room temperature. These compounds have been suggested to be environmentally friendly and are proposed to be replacements for commercially available solvents used in laboratory operations today. There is an increasing interest in these compounds, but toxicological data of ionic liquids are still scarce. In this project five imidazolium based ionic liquids, 1-etyl-3-methylimidazolium, 1-butyl-3-methylimidazolium, 1-hexyl-3-methylimidazolium, 1-octyl-3-methylimidazolium and 1-decyl-3-methylimidazolium were evaluated based on responses on aryl hydrocarbon receptor (DR-Ecoscreen), Nrf2 activity (MCF732cARE), androgen receptor (AR-Ecoscreen) and estrogen receptor (VM7Luc4ER). This was done with an effect based in vitro approach using luciferase bioassays. The results show that imidazolium based ionic liquids have the ability to induce androgen and estrogen receptor activity. It is also shown that imidazolium based ionic liquids can act as antagonists on the androgen receptor. Imidazolium based ionic liquids does not seem cause oxidative stress and is shown to not interact with the aryl hydrocarbon receptor. The ability of 1-octyl-3-methylimidazolium and 1-decyl-3-methylimidazolium to pass the gastrointestinal tract was also tested in a modified transwell caco-2 permeability test, which resembled the human GI-tract. It was shown to be difficult to evaluate if 1-octyl-3-methylimidazolium and 1-decyl-3-methylimidazolium have the ability to pass through the GI-tract and antagonize on the androgen receptor. These results are important from both an environmental as well as human health point of view if imidazolium based ionic liquids are to be accidentally or intentionally release into the environment.

Conselho Nacional de Desenvolvimento Científico e Tecnológico / Delta-aminolevulinic acid dehydratase (δ-ALA-D) is an essential metalloprotein found in several biological processes, since it is able to catalyze the formation of porphobilinogen (PBG), a precursor monopyrol of tetrapyrroles (heme and chlorophyll). This enzyme is sensible to heavy metals and other pro-oxidant agents and, consequently, it has been classically used as a protein marker for lead intoxication. Both in vitro and in vivo studies has shown that the organochalcogen diphenyl diselenide [(PhSe)2] could be a promising drug due to present antioxidant, neuroprotective, anti-inflammatory, anti-atherosclerotic and other activities. Contrariwise, (PhSe)2 could also be toxic because it can inhibit the activity of important sulfhydryl enzymes, including δ-ALA-D. Regarding some experimental data, it has been speculated that mammalian δ-ALA-D inhibition can occur via the oxidation of two vicinal thiols located in it active center site. However, no molecular model had been proposed in order to explain this interaction with details. Thus, we aimed to get a further understanding about the interaction involving δ-ALA-D and diselenides using in silico molecular modeling methods, which are consisted in theoretical methods applied in to represent or mimic the behavior and interaction of ligands and enzymes from their structural and thermodynamic information. Docking simulations indicated an important role for π-π interactions involving Phe208 and cation-π interactions involving Lys199 and Arg209 residues with the aromatic ring of (PhSe)2 and analogs bis 4-(clorophenyl) diselenide, bis 4-(methoxyphenyl)diselenide and bis 3-(trifluorometil(phenyl)diselenide. These interactions allowed an approximation between Se atoms and SH of Cys124 (3.3 3.5 Å). The analogs interacted similarly with the active site of δ-ALAD. According to the quantum method MFCC (Molecular Fractionation with Conjugated Caps), interactions involving (PhSe)2 could occur up to 8.5 Å distance from the centroid of active site. Phe208, Phe79, Cys122, Cys124, Pro125, Asp120, Lys199, Lys252 and Cys132 displayed strong attraction energy to (PhSe)2. The representative molecular model is in accordance with in vitro assays and gives mechanistic support to previous speculative mechanism of inhibition. Phenyl moieties in (PhSe)2 can be strongly attracted by aromatic and positive charged residues from δ-ALA-D active site. This allows the approximation of the reactive electrophile moiety Se-Se to the nucleophile S- groups from Cys122, Cys124 and Cys132, facilitating the release of coordinated Zn(II), thiol oxidation and formation of 2 molecules of phenylselenol (PhSeH). In conclusion, the presence of aromatic moieties in (PhSe)2 and its reactive electrophile moiety Se-Se are crucial to δ-ALA-D inhibition, which leads to thiol oxidation and consequent impairment of its activity. / A enzima δ-aminolevulinato desidratase (δ-ALA-D) é uma metaloproteína essencial em vários processos biológicos, uma vez que é responsável por catalisar a formação de porfobilinogênio (PBG), um precursor dos tetrapirrólicos (heme, clorofila). Esta enzima é sensível a metais pesados e outros pró-oxidantes e, dessa forma, tem sido classicamente usada como um marcador na intoxicação por chumbo. Estudos in vitro e in vivo têm demonstrado que o organocalcogênio disseleneto de difenila [(PhSe)2] pode ser um fármaco promissor por demonstrar várias atividades biológicas, incluindo antioxidante, neuroprotetora, anti-inflamatória, anti-aterosclerótica e outras. Por outro lado, o (PhSe)2 e análogos também são tóxicos por inibir a atividade de enzimas sulfidrílicas, incluindo a δ-ALA-D. Baseados em dados experimentais, tem-se especulado que a inibição da δ-ALA-D de mamíferos pode ocorrer via oxidação de dois tióis vizinhos localizados no centro ativo da enzima. No entanto, não se tinha conhecimento de nenhum estudo baseado em modelagem molecular com o intuito de explicar esta interação de forma mais detalhada. Diante disso, objetivamos compreender essas interações a partir da modelagem molecular in silico, que consiste em métodos teóricos aplicados para representar ou mimetizar o comportamento e interação de ligantes e enzimas a partir de informações sobre os requisitos estruturais e termodinâmicos essenciais. Os estudos de docking molecular indicaram um papel importante das interações π-π envolvendo Phe208 e cátion-π envolvendo Lys199 e Arg209 e anéis aromáticos do (PhSe)2 e análogos bis 4-(clorofenil) disseleneto, bis 4-(metoxifenil) disseleneto e bis 3-[trifluorometil(fenil)] disseleneto. Estas interações permitem uma aproximação entre átomos de Se do composto e SH da Cys124 (3.3 3.5 Å). Os análogos também interagem de forma semelhante com o sítio ativo da δ-ALA-D. De acordo com o método MFCC (Fracionamento Molecular com Capas Conjugadas), foi possível observar interações envolvendo o (PhSe)2 e resíduos posicionados até uma distância de 8,5 Å do centroide do ligante. Phe79, Cys122, Cys124, Pro125, Asp120, Lys199, Lys252 e Cys132 demonstraram as maiores energia de interação (atrativa) com o (PhSe)2. O modelo molecular representado está em conformidade com ensaios in vitro e fornece informações importantes que reforçam o mecanismo de inibição especulado. Os grupos fenil do (PhSe)2 são fortemente atraídos por resíduos aromáticos e carregados positivamente presentes no sítio ativo da δ-ALA-D. Dessa forma, permite-se a aproximação da porção eletrófila Se Se ao grupos nucleófilos S dos resíduos Cys122, Cys124 e Cys132, facilitando a liberação de Zn(II), a oxidação dos tiolatos e a formação de duas moléculas de fenilselenol (PhSeH), levando a consequente inibição da atividade da enzima.