<p>CYPs are a large and diverse protein superfamily found in all domains of life and are able to metabolize a wide array of both exogenous and endogenous molecules. The CYPome of the polychaete annelid Capitella teleta has been robustly identified and annotated with the genome assembly available (version 1). Annotation of 84 full length and 12 partial CYP sequences predicted a total of 96 functional CYPs in C. teleta. A further 13 CYP fragments were found but these may be pseudogenes. The C. teleta CYPome contained 24 novel CYP families and seven novel CYP subfamilies within existing families. A phylogenetic analysis was completed, primarily with vertebrate sequences, and identified that the C teleta sequences were found in 9 of the 11 metazoan CYP clans. Clan 2 was expanded in this species with 51 CYPs in 14 novel CYP families containing 20 subfamilies. There were five clan 3, four clan 4, and six mitochondrial clan full length CYPs. Two CYPs, CYP3071A1 and CYP3072A1, did not cluster with any metazoan CYP clan. C. teleta had a CYP51A1 gene with ~65% identity to vertebrate CYP51A1 sequences and was predicted to have lanosterol 14 α-demethylase activity. Several CYPs (CYP376A1, CYP3068A1, CYP3069A1, and CYP3070A1) are discussed as candidate genes for steroidogenesis. There are two CYP1-like CYPs and a total of four CYP331s found in C. teleta, which may play a role in PAH metabolism and warrant further analysis.</p> / Master of Science (MSc)

Enhancers regulate gene expression through epigenetic mechanisms influenced by internal and external stimuli. In mouse liver, growth hormone and environmental chemical exposures activate enhancers regulating gene expression in part through changes in chromatin accessibility. Identifying functional enhancers in the complex environment of mouse liver is challenging. This thesis presents HDI-STARR-seq, a massively parallel STARR-seq reporter assay that combines hydrodynamic injection (HDI)-driven plasmid delivery to mouse liver cells in vivo with expression from the liver-specific Albumin promoter to assay functional changes in enhancer-driven transcription induced by sex-dependent hormonal stimulation and xenobiotic exposure. HDI-STARR-seq employs a minimal albumin promoter, shows minimal innate immune response and apparently facilitates plasmid chromatinization recapitulating endogenous liver chromatin states. The assay is robustly reproducible in a small reporter library (~100 regions) and can be scalable for genome-wide analysis using 25,000-50,000 synthetic DNA fragments or enzyme-released mouse liver genomic fragments. Single nucleus-based 10x Genomics Multiome analysis identified accessible mouse liver chromatin regions genome-wide, their linked target genes in hepatocytes, and their differential accessibility between sexes and following exposure to TCPOBOP, a CAR (Nr1i3) agonist ligand. Using HDI-STARR-seq, functional enhancer activity was determined for 1,789 accessible chromatin regions across biological conditions, identifying many sex-biased, GH-regulated enhancers undergoing chromatin changes. The regulated enhancers were associated with enrichment for H3K4me1 and H3K27ac histone marks, showed regulated activities that matched activating histone marks and contained Hnf4a and other enriched motifs in male-biased, GH-repressed enhancer sets. Further, the impact of TCPOBOP exposure for 1 day or 2 weeks on HDI-STARR-seq activity was evaluated in mice of both sexes at 1,834 accessible chromatin regions. Induced H3K27ac and static H3K4me1 were enriched at TCPOBOP-responsive enhancers, as were DR4 motifs bound by CAR/RXR heterodimers. Motifs bound by Tcf, involved in cell proliferation, were enriched in HDI-STARR-seq active enhancers only after 2-week TCPOBOP exposure, indicating activation of a late responding signaling pathway. This research gives novel insights into the relationship between functional enhancer activity in mouse liver and hormonal and xenobiotic regulated epigenetic landscapes, and establishes the utility of HDI-STARR-seq for discovery of biologically relevant enhancer sequences in vivo. / 2026-09-18T00:00:00Z

O câncer é a segunda maior causa de morte no Brasil, atrás apenas de doenças cardíacas. Por isto, é evidente que grandes recursos sejam direcionados para a pesquisa no descobrimento de novas opções com a finalidade de erradicar esta doença. Dentre estas opções, a quimioprevenção do câncer tem chamado a atenção já que, mesmo com os imensos avanços no conhecimento sobre os mecanismos da carcinogênese e conseqüente desenvolvimento de novas drogas, os dados estatísticos de mortalidade não se tornaram menores. Somando-se a estes fatos, deve ser considerado que no Brasil o tratamento padrão do câncer não chega a todas as pessoas por ser extremamente caro. Desta forma, a quimioprevenção do câncer com fatores presentes na dieta ou oriundos de fontes consideradas baratas como fitoterápicos, deve ser apreciada. Assim, este trabalho teve como objetivo avaliar os efeitos quimiopreventivos e antineoplásicos de uma planta brasileira, o guaraná (Paullinia cupana Mart var. sorbilis). Foram utilizados alguns experimentos em camundongos como indução genotóxica em fígado pela Dietilnitrosamina (DEN); carcinogênese pulmonar induzida pela 4-(metilnitrosamino)-1-(3-piridil)-1-butanona (NNK), uma nitrosamina presente no tabaco; tumor ascítico de Ehrlich; disseminação hematógena de melanoma B16/f10; e cultivo de células tumorais e não tumorais. Além disso, caracterizou-se o papel da Conexin43 na carcinogênese pulmonar induzida pelo NNK e os efeitos do guaraná sobre o receptor CAR e sua ação quando da administração do ligante do CAR, 1,4-bis[2-(3,5-dichloropiridiloxi)]benzeno (TCPOBOP). Pudemos observar efeitos quimiopreventivos e antineoplásicos do guaraná dependendo do modelo utilizado, demonstrando que seu modo de ação principal é a redução da proliferação celular. Além disso, observamos que os tumores de pulmão dos animais tratados com a planta apresentavam menor tamanho, menor grau maligno, menor índice de proliferação celular e menor ativação do fator de transcrição CREB. Observamos também que a Conexina43 (Cx43) tem importante papel na carcinogênese pulmonar induzida pelo NNK, atuando como supressor tumoral e em fases tardias possivelmente tendo papel inverso, ou seja, como um oncogene. Caracterizamos os efeitos do guaraná sobre a ativação do receptor CAR e demonstramos que, por si só, o guaraná induz a expressão do CAR, além de alterar a expressão de alguns de seus transcritos como a CYP2B10 e CYP3A11. Ao analisarmos os efeitos de extratos de guaraná sobre células de tumor de pulmão (E9) in vitro, verificamos o mesmo efeito antiproliferativo, diminuindo a expressão do PCNA e da Conexina43 de maneira dose-dependente, além de verificar um aumento da expressão do receptor CAR. Ao fim propomos uma hipótese de mecanismo de ação baseando-se nas alterações encontradas oriundas da administração do guaraná. Concluímos que o guaraná apresenta componentes com ação antitumoral em camundongos, tendo efeito quimiopreventivo ou antineoplásico dependendo do modelo utilizado. / Cancer is the second biggest cause of deaths in Brazil, only behind of cardiac diseases. As a result, it is evident that great resources for research will be directed towards the discovery of new options to eradicate this disease. Among these options, cancer chemoprevention has calling for attention since the huge advances in the knowledge of carcinogenesis and development of new drugs did not decrease statistical data on mortality due to cancer. In addition, it must be considered that in Brazil, cancer therapy is not available for all given that it is too expensive. Therefore, cancer chemoprevention with dietary factors or from medicinal plants has got to be treasured. Following these lines, the aim of this work was to evaluate the chemopreventive and antineoplastic effects of a Brazilian plant, Paullinia cupana Mart var. sorbilis, most known as guarana. It was used several experiments in mice and cell culture essays as: protection against DEN-induced DNA damage; NNK-induced lung carcinogenesis; Ehrlich Ascitic Tumor; metastasis of B16/f10 melanoma cells; and cell culture of a tumorigenic and a non-tumorigenic cell lines. Additionally, it was characterized the role of Connexin43 in the NNK-induced lung carcinogenesis and the effects of guarana on the CAR receptor before and after the administration of TCPOBOP. We note a chemopreventive or antineoplastic effect of guarana depending on the model employed and showed that the mode of action responsible for these effects was reduced cell proliferation. Also, the lung tumors of guarana-treated animals were smaller, less aggressive, with decreased cell proliferation and CREB activation. On the other hand, we observed that Connexin43 have an important role on NNK-induced lung carcinogenesis because it may act as a tumor suppressor and in advanced stages as an oncogene. The effects of guarana on the CAR activation were characterized and we showed that guarana induces CAR mRNA expression, altering the levels of its transcripts as CYP2B10 and CYP3A11. We also examined the effects of guarana extracts on a lung tumor cell culture (E9 cells) and demonstrated the same antiproliferative effect observed previously, by decreased PCNA and Connexin43 proteins in a dose-dependent manner along with an increase in CAR protein. At last we hypothesized a mechanism of action for guarana effects basing in our findings. We concluded that guarana presents substances that have antitumoral effects in mice, enclosing a chemopreventive or antineoplastic effect depending on the model studied.

O câncer é a segunda maior causa de morte no Brasil, atrás apenas de doenças cardíacas. Por isto, é evidente que grandes recursos sejam direcionados para a pesquisa no descobrimento de novas opções com a finalidade de erradicar esta doença. Dentre estas opções, a quimioprevenção do câncer tem chamado a atenção já que, mesmo com os imensos avanços no conhecimento sobre os mecanismos da carcinogênese e conseqüente desenvolvimento de novas drogas, os dados estatísticos de mortalidade não se tornaram menores. Somando-se a estes fatos, deve ser considerado que no Brasil o tratamento padrão do câncer não chega a todas as pessoas por ser extremamente caro. Desta forma, a quimioprevenção do câncer com fatores presentes na dieta ou oriundos de fontes consideradas baratas como fitoterápicos, deve ser apreciada. Assim, este trabalho teve como objetivo avaliar os efeitos quimiopreventivos e antineoplásicos de uma planta brasileira, o guaraná (Paullinia cupana Mart var. sorbilis). Foram utilizados alguns experimentos em camundongos como indução genotóxica em fígado pela Dietilnitrosamina (DEN); carcinogênese pulmonar induzida pela 4-(metilnitrosamino)-1-(3-piridil)-1-butanona (NNK), uma nitrosamina presente no tabaco; tumor ascítico de Ehrlich; disseminação hematógena de melanoma B16/f10; e cultivo de células tumorais e não tumorais. Além disso, caracterizou-se o papel da Conexin43 na carcinogênese pulmonar induzida pelo NNK e os efeitos do guaraná sobre o receptor CAR e sua ação quando da administração do ligante do CAR, 1,4-bis[2-(3,5-dichloropiridiloxi)]benzeno (TCPOBOP). Pudemos observar efeitos quimiopreventivos e antineoplásicos do guaraná dependendo do modelo utilizado, demonstrando que seu modo de ação principal é a redução da proliferação celular. Além disso, observamos que os tumores de pulmão dos animais tratados com a planta apresentavam menor tamanho, menor grau maligno, menor índice de proliferação celular e menor ativação do fator de transcrição CREB. Observamos também que a Conexina43 (Cx43) tem importante papel na carcinogênese pulmonar induzida pelo NNK, atuando como supressor tumoral e em fases tardias possivelmente tendo papel inverso, ou seja, como um oncogene. Caracterizamos os efeitos do guaraná sobre a ativação do receptor CAR e demonstramos que, por si só, o guaraná induz a expressão do CAR, além de alterar a expressão de alguns de seus transcritos como a CYP2B10 e CYP3A11. Ao analisarmos os efeitos de extratos de guaraná sobre células de tumor de pulmão (E9) in vitro, verificamos o mesmo efeito antiproliferativo, diminuindo a expressão do PCNA e da Conexina43 de maneira dose-dependente, além de verificar um aumento da expressão do receptor CAR. Ao fim propomos uma hipótese de mecanismo de ação baseando-se nas alterações encontradas oriundas da administração do guaraná. Concluímos que o guaraná apresenta componentes com ação antitumoral em camundongos, tendo efeito quimiopreventivo ou antineoplásico dependendo do modelo utilizado. / Cancer is the second biggest cause of deaths in Brazil, only behind of cardiac diseases. As a result, it is evident that great resources for research will be directed towards the discovery of new options to eradicate this disease. Among these options, cancer chemoprevention has calling for attention since the huge advances in the knowledge of carcinogenesis and development of new drugs did not decrease statistical data on mortality due to cancer. In addition, it must be considered that in Brazil, cancer therapy is not available for all given that it is too expensive. Therefore, cancer chemoprevention with dietary factors or from medicinal plants has got to be treasured. Following these lines, the aim of this work was to evaluate the chemopreventive and antineoplastic effects of a Brazilian plant, Paullinia cupana Mart var. sorbilis, most known as guarana. It was used several experiments in mice and cell culture essays as: protection against DEN-induced DNA damage; NNK-induced lung carcinogenesis; Ehrlich Ascitic Tumor; metastasis of B16/f10 melanoma cells; and cell culture of a tumorigenic and a non-tumorigenic cell lines. Additionally, it was characterized the role of Connexin43 in the NNK-induced lung carcinogenesis and the effects of guarana on the CAR receptor before and after the administration of TCPOBOP. We note a chemopreventive or antineoplastic effect of guarana depending on the model employed and showed that the mode of action responsible for these effects was reduced cell proliferation. Also, the lung tumors of guarana-treated animals were smaller, less aggressive, with decreased cell proliferation and CREB activation. On the other hand, we observed that Connexin43 have an important role on NNK-induced lung carcinogenesis because it may act as a tumor suppressor and in advanced stages as an oncogene. The effects of guarana on the CAR activation were characterized and we showed that guarana induces CAR mRNA expression, altering the levels of its transcripts as CYP2B10 and CYP3A11. We also examined the effects of guarana extracts on a lung tumor cell culture (E9 cells) and demonstrated the same antiproliferative effect observed previously, by decreased PCNA and Connexin43 proteins in a dose-dependent manner along with an increase in CAR protein. At last we hypothesized a mechanism of action for guarana effects basing in our findings. We concluded that guarana presents substances that have antitumoral effects in mice, enclosing a chemopreventive or antineoplastic effect depending on the model studied.

Abstract The evaluation of the effects and levels of contaminants in wildlife is an essential part of assessing risks for chemical exposure in the environment. Although the circumstances are not as controlled as in laboratory, wildlife studies offer the concept of environmental exposure in its entirety, with all the natural variation. In the present study, two wild vole species, bank vole (Myodes glareolus) and field vole (Microtus agrestis), were used in assessing environmental levels of dioxins. The effects of dioxin exposure on tooth and bone development were studied in order to determine whether they could be used as biomarkers for environmental exposure. Xenobiotic metabolism activity after dioxin exposure – both natural and experimental – was studied by quantifying selected cytochrome P-450 (CYP) enzymes. The results confirmed the fact that dioxins are ubiquitous in the environment, also in areas far from contaminant sources and human activity. The development of the third molar in bank vole was found to be a sensitive biomarker for dioxin exposure. The two vole species under study do not respond similarly to environmental concentrations of dioxins; there were significant differences in body burdens and activity levels of xenobiotic metabolizing enzymes. / Tiivistelmä Haitallisten kemikaalien tason ja vaikutusten arviointi ympäristössä on olennainen osa kemikaalien riskin arviointia. Vaikka laboratoriossa olosuhteita kontrolloidaan ja tutkimukseen vaikuttava variaatio on paremmin hallittavissa, luonnonvaraisten lajien tutkiminen luo kokonaisvaltaisen ja todenmukaisen kuvan ympäristön kemikaalialtistuksesta kaikkine todellisine vaihteluineen. Tässä väitöskirjassa tarkastellaan kahden luonnonvaraisen pikkunisäkkään, metsämyyrän (Myodes glareolus) ja peltomyyrän (Microtus agrestis), käyttöä ympäristön kemikaalitason arvioinnissa. Pääpaino on dioksiinien kaltaisissa yhdisteissä. Työssä tutkitaan yhdisteiden kertymistä myyriin kahdessa ympäristössä: voimakkaasti dioksiineilla saastuneella maa-alueella sekä kaukana ihmistoiminnasta sijaitsevassa erämaassa. Herkiksi tiedettyjä vasteita – hampaiden ja luiden kehitystä – käytetään dioksiinialtistuksen indikaattoreina. Vierasainemetaboliasta vastaavien entsyymien (sytokromi P450 eli CYP) aktiivisuutta kartoitetaan molemmilla myyrälajeilla, jotta saadaan tietoa entsyymien indusoinnista luonnonvaraisilla myyrillä yleensä ja selvitetään havaittuja lajien välisiä eroja dioksiinivasteissa. Tulokset vahvistavat, että dioksiinit ovat laajalle levinneitä yhdisteitä, joita löytyy paitsi läheltä päästölähdettä myös kaukana ihmistoiminnasta olevilta alueilta. Metsämyyrällä kolmannen poskihampaan kehitys osoittautuu herkäksi dioksiinialtistuksen biomarkkeriksi. Samasta elinympäristöstä huolimatta tutkituista myyrälajeista mitatut dioksiinipitoisuudet eroavat huomattavasti toisistaan, samoin kuin vierasainemetaboliasta vastaavien entsyymien aktiivisuus ja niiden induktio TCDD-altistuksen jälkeen.

No description available.

Abstract Peroxisome proliferator-activated receptor gamma coactivator 1-alpha (PGC-1α) and AMP-activated protein kinase (AMPK) are major factors regulating energy homeostasis. In this study, we aimed to investigate how energy flux affects several hepatic functions mediated by these factors. We define a novel role of PGC-1α and AMPK as modulators of the immune system in the liver. We show that PGC-1α is involved in the regulation of a cluster of genes related to the immune system, most importantly Interleukin 1 receptor antagonist (IL1Rn). Since PGC-1α is responsive to energetic stress associated with fasting or physical exercise, the same stimuli promote IL1Rn in hepatocytes. We identify AMPK as an independent inducer of IL1Rn and hypothesise that it could account for the anti-inflammatory effect of the antidiabetic drug metformin. We also demonstrate that metformin reduces expression of Sirtuin 3 (SIRT3) in hepatocytes and promotes acetylation of mitochondrial protein. We suggest that this mechanism, in spite of increased mitochondrial biogenesis, contributes to reduced ATP synthesis in metformin-treated samples. In addition, we demonstrate that Pregnane X receptor (PXR) is induced in the liver during fasting and by PGC-1α in hepatocytes. Furthermore, we describe a negative regulatory mechanism involving SIRT1, activated by pyruvate and interfering with PXR signaling. We show that SIRT1 attenuates PGC-1α-mediated co-activation of PXR and its target genes, i.e. Cyp3a11, with possible implications for drug and xenobiotic metabolism. In conclusion, we demonstrate how energetic stress affects various hepatic functions mediated by PGC-1α and AMPK. Moreover, we describe SIRT1 and metformin as factors capable of modulating this response. / Tiivistelmä Peroksisomiproliferaattori-aktivoituvan reseptori gamman koaktivaattori 1α (PGC-1α) ja AMP:n aktivoima proteiinikinaasi (AMPK) ovat keskeisiä energiametabolian säätelijöitä. Tässä tutkimuksessa oli tavoitteena selvittää kuinka energiataso vaikuttaa useisiin, näiden tekijöiden säätelemiin maksan toimintoihin. Osoitamme että PGC-1α ja AMPK tekijöillä on ennestään tuntematon merkitys immuunijärjestelmän säätelyssä maksassa. Näytämme myös, että PGC-1α säätelee joukkoa geenejä, joiden tehtävä liittyy immuunijärjestelmään, tärkeimpänä Interleukiini 1 reseptori antagonistia (IL1Rn). Paastoon ja fyysiseen aktiivisuuteen liittyvä energiastressi aktivoi PGC-1α:aa ja näiden samojen stimuluksien havaittiin lisäävän myös IL1Rn tasoa hepatosyyteissä. Havaitsimme AMPK:n olevan itsenäinen IL1Rn indusori ja hypoteesimme mukaan tämä voi välittää diabeteslääkkeenä käytettävän metformiinin anti-inflammatorisia vaikutuksia. Osoitamme myös, että metformiini alentaa Sirtuiini (SIRT) 3:n ekspressiota maksasoluissa ja lisää mitokondriaalisten proteiinien asetylaatiota. Uskomme tämän mekanismin, huolimatta lisääntyneestä mitokondrioiden biogeneesistä, myötävaikuttavan vähentyneeseen ATP synteesiin metformiinikäsitellyissä näytteissä. Lisäksi osoitamme, että paasto ja PGC-1α indusoivat Pregnaani X reseptorin (PXR) ilmentymistä maksasoluissa. Kuvaamme myös PXR signalointiin vaikuttavan ja pyruvaatin aktivoiman, SIRT1:n välitteisen, negatiivisen säätelymekanismin. SIRT1 estää PGC-1α välitteistä PXR koaktivaatiota ja kohdegeenien, kuten Cyp3a11, aktivaatiota, millä voidaan olettaa olevan merkitystä lääkeaineiden ja vierasaineiden metaboliaan. Yhteenvetona osoitamme, että energiastressi PGC-1α:n ja AMPK:n välittämänä vaikuttaa useisiin maksan toimintoihin. Lisäksi näytämme, että SIRT1 ja metformiini voivat moduloida näitä vaikutuksia.

Les gènes du métabolisme des xénobiotiques (MX) impliqués dans l’activation et l’élimination des cancérogènes environnementaux pourraient moduler le risque de cancer du sein, mais leurs effets dans ce cancer ont été peu étudiés et sont mal connus. Les objectifs de la thèse étaient d’étudier le rôle des gènes MX dans le cancer du sein d’une part, et dans les niveaux biologiques de cancérogènes mammaires suspectés, d’autre part. Les analyses ont porté sur les données d’une étude cas-témoins en population sur les cancers du sein (étude CECILE). L’association avec le cancer du sein a été étudiée (1) avec les variants du gène NAT2 qui déterminent le type d’acétyleur lent ou rapide de chaque individu ; (2) les polymorphismes des gènes MX étudiés conjointement au niveau de chacun des gènes et au niveau de l’ensemble du pathway à l’aide d’une méthode exploratoire de type « gene-set ». Dans chacune de ces approches, les interactions avec la consommation de tabac ont été étudiées. Dans une dernière partie, nous avons cherché à identifier les polymorphismes des gènes MX prédictifs des concentrations sanguines de polluants organochlorés persistants (p,p’-DDE et PCB153) chez les témoins de l’étude CECILE. Le risque de cancer du sein était augmenté chez les femmes ayant un profil génétique NAT2 d’acétyleuses rapides par rapport aux femmes ayant un profil d’acétyleuses lentes. Parmi les acétyleuses lentes, les femmes fumeuses avaient un risque de cancer du sein augmenté par rapport aux non fumeuses indiquant l’existence d’une interaction tabac-NAT2. L’approche « gene-set » montrait que les polymorphismes au niveau de plusieurs gènes MX et au niveau de l’ensemble du pathway étaient associés collectivement au cancer du sein. L’association entre le cancer du sein et l’ensemble des polymorphismes du pathway XM était observée chez les fumeuses, indiquant le rôle de la consommation de tabac dans cette association. Enfin, nous avons montré l’effet du gène CYP2B6 en tant que déterminant des niveaux sanguins de p,p’-DDE et PCB153. Nos résultats mettent en évidence un rôle des gènes XM dans le cancer du sein qui peut être expliqué par leur fonction dans le métabolisme et l’élimination des cancérogènes environnementaux. / The xenobiotic metabolism (XM) genes involved in the activation and elimination of environmental carcinogens may modulate breast cancer risk, but their effects in breast cancer have been little studied and are poorly understood. The objectives of the PhD were to study the role of XM genes in breast cancer on the one hand, and in the biological levels of suspected breast carcinogens on the other. The analyses were based on a population-based case-control study on breast cancer (CECILE study). We investigated the association of breast cancer (1) with NAT2 gene variants that determine the type of slow or rapid acetylator in each individual; (2) with polymorphisms of XM genes that were studied jointly at the gene and at the XM pathway level using a gene set method. In each of these approaches, interactions with tobacco consumption were studied. In a final section, we sought to identify polymorphisms of XM genes that predict blood concentrations of persistent organochlorine pollutants (p,p'-DDE and PCB153) among the controls of the CECILE study.The risk of breast cancer was increased in women with a NAT2 genetic profile of rapid acetylators compared to women with a profile of slow acetylators. Among slow acetylators, current smokers had an increased risk of breast cancer compared to non-smokers, indicating an interaction between tobacco smoking and NAT2 genotype. The gene set approach showed that polymorphisms at the level of some XM genes and at the level of the entire pathway were collectively associated with breast cancer. The association between breast cancer and all pathway XM polymorphisms was observed in female smokers, indicating a role for tobacco smoking in this association. Finally, we have shown that CYP2B6 gene was a determinant of blood levels of p,p'-DDE and PCB153. Our results highlight a role of XM genes in breast cancer that is explained by their function in the metabolism and elimination of environmental carcinogens.

Genome sequencing has resulted in the identification of >55,000 cytochrome P450 enzymes, many of which have an unknown function and regulation. In mammals, CYP3 genes appear in only one subfamily (CYP3A), which metabolize >50% of pharmaceuticals and some steroids in humans. Unlike mammals, fish contain genes in the CYP3A, CYP3B, CYP3C and CYP3D subfamilies. While it is commonly assumed that fish and mammalian CYP3A are functional similar, the function and regulation of fish CYP3 remains largely unknown. In this thesis, the receptors and compounds that regulate CYP3C genes in zebrafish were assessed. The induction of CYP3C genes in response to the aryl hydrocarbon (AHR) and estrogen receptor (ER) ligands, β-naphthoflavone and 17β-estradiol, was measured using quantitative PCR in intestine, liver and gonads. Zebrafish CYP3C genes were inducible by β-naphthoflavone and 17β-estradiol, implicating the aryl hydrocarbon and estrogen receptor in CYP3C gene regulation and suggesting that regulation of CYP3 genes in fish differs from that in mammals. To define the function of zebrafish CYP3A65 and CYP3C1, fluorogenic compounds which are specific markers of CYP1 and CYP3A activity in humans, were screened for metabolism by CYP3A65 and CYP3C1. Both CYP3A65 and CYP3C1 had the capacity to metabolize several of these compounds and the substrate profile overlapped with zebrafish CYP1A, suggesting that these compounds are not specific in fish. A high throughput approach was employed to screen ~4000 small biologically and pharmacologically active compounds for metabolism by CYP3A65 and CYP3C1, using NADPH consumption to assess catalytic activity. The substrate profiles of CYP3A65 and CYP3C1 largely overlapped and were different than mammalian CYP3A4. CYP3A65 and CYP3C1 appeared to have a bias for quinone-based compounds but further studies are required to confirm quinones as substrates and to assess a strong structure-activity relationship. Overall, this study provides insight on the regulation, function and evolution on CYP3 genes in fish. / Dissertation / Doctor of Philosophy (PhD) / Cytochrome P450 (CYP) enzymes break down compounds such as hormones and pharmaceuticals. While mammals have genes in the CYP3A subfamily, fish have unique subfamilies not found in mammals. The function and regulation of the CYP3 family in fish is unknown, but commonly assumed to be like human CYP3. The purpose of this thesis was to identify what receptors and compounds regulate CYP3C enzymes in zebrafish. We found that regulation of CYP3C enzymes in zebrafish is different than humans. Zebrafish CYP3C genes are regulated by the aryl hydrocarbon receptor and estrogen receptor, while human CYP3A is regulated by the pregnane-x-receptor. I used a high throughput approach to screen thousands of compounds to identify the function of CYP3A65 and CYP3C1 from zebrafish. CYP3A65 and CYP3C1 metabolize several plant-based and pharmaceutical compounds. CYP3A65 and CYP3C1 are more functionally similar to each other than to CYP3A in humans.

Activation of mammalian stress responsive pathways by plant secondary metabolites may contribute to the protection against certain chronic diseases afforded by fruit and vegetable consumption. This work focuses on the identification of plant compounds that activate the stress-responsive enzyme quinone reductase (QR) by stabilizing the transcription factor NF-E2 related factor-2 (Nrf2). Screening methanolic extracts of plants from Western Canada for QR induction in a mouse hepatoma cell line (Hepa-1c1c7) led to the identification of twenty-one extracts capable of doubling the activity of QR. Bioassay-guided fractionation of six extracts led to the identification of novel classes of compounds with QR-inducing activity including fatty-acid derived polyacetylenes, phthalides, and cannabinoids. Studies using low molecular weight thiols and the recombinantly expressed protein Keap1, the principal negative regulator of Nrf2, supported a mechanism of QR activation involving covalent modification of Keap1 cysteines for the polyacetylenes and phthalides. Analysis of transcriptional changes in response to treatment with a panel of QR-inducing compounds provided strong support for Nrf2 activation by the polyacetylene (3S,8S)-falcarindiol and the isothiocyanate (R)-sulforaphane and weaker support for the compounds (3R,8S)-falcarindiol, 6-isovaleryl-umbelliferone (6-IVU) and (Z)-ligustilide. Additionally, transcript level analyses supported a role for the aryl-hydrocarbon receptor in QR-activation by (3R,8S)-falcarindiol, (Z)-ligustilide, (R)-sulforaphane, 6-IVU and cannabidiol and suggested that treatment with polyacetylenes with a (3R)-configuration, (Z)-ligustilide and 6-IVU causes substantial changes in the expression of genes associated with lipid homeostasis and energy metabolism. As a whole, this work provides evidence that compounds that activate QR (and Nrf2) are widely distributed in the Canadian flora. However, of these QR activators, few are active at concentrations that are expected to be achieved through dietary consumption. Nevertheless, the most exceptional compounds isolated in this work, the compounds (3S,8S)-falcarindiol and epoxyfalcarindiol are highly potent and appear to be or are expected to be specific for activating Nrf2 and thus warrant attention with respect to dietary implications and as drug candidate leads.