Several classes of antimetabolites have been developed for the treatment of cancer, including numerous inhibitors of nucleotide biosynthesis. N-(phosphonacetyl)-L-aspartate (PALA) and hydroxyurea (HU) are two antimetabolites that inhibit nucleotide biosynthesis; PALA inhibits de novo pyrimidine synthesis and HU inhibits the conversion of ribonucleotide diphosphates to deoxyribonucleotide diphosphates. Due to the similar mechanisms, it was thought that cancer cells would respond similarly to HU and PALA treatment. However, studies in this dissertation revealed strikingly different responses to either HU or PALA treatment in HCT116 cells. A cytoprotective S-phase arrest was activated upon HU treatment while PALA treatment failed to activate the S-phase checkpoint, resulting in p53-dependent apoptosis. The checkpoint effector kinase, Chk1, was not significantly phosphorylated during PALA treatment due to a failure to recruit ATR, the upstream kinase, to chromatin sites. The post-translational modifications of p53, phosphorylation of serines 46 and 392, suggested that PALA treatment promotes the accumulation of a transcriptionally active p53 while HU does not. ChIP analysis showed that p53 bound to pro-apoptotic promoters, therefore activating p53-dependent apoptosis during PALA treatment. To gain more insight into these differential cellular responses, we developed a tandem-affinity purification (TAP) tagged p53 cell line in which a TAP tag was inserted into the C-terminus of the endogenous p53 genetic locus through homologous recombination. This technology allows purification of p53 with its protein binding partners at endogenous expression levels. The tagged p53 accumulated and bound to promoters in response to DNA damage similar to the untagged p53, suggesting that the TAP tag did not interfere with the normal cellular functions of p53. Using mass spectrometry, we can identify the different p53 protein binding partners in response to PALA or HU treatment. We can also determine the variable pattern of post-translational modifications on different drug-stabilized p53 and determine which modifications are responsible for promoting apoptosis versus cytoprotective arrest. We can then exploit the identified proteins and post-translational modifications in the development of new chemotherapeutic agents.

Cervical cancer is the second most common malignancy in women worldwide and one of the leading causes of cancer mortality globally. In patients with invasive cervical cancer prognostic factors are of value for the choice of treatment, monitoring of treatment and follow-up. The most important clinical prognostic factors are stage, tumor volume, parametrial infiltration, vascular invasion, lymph node metastases, and distant metastases. An improved estimation of the prognosis of cervical cancer is desirable, especially in early cancer stages. The aim of this research was to study possible associations between tumor markers, female sex steroids, smoking, S-phase fraction (SPF), and prognosis in invasive squamous cell cervical cancer (SCC). The study comprised 190 patients with SCC, stages IB-IV, admitted to the Department of Gynecologic Oncology at Norrland University Hospital in Umeå between September 1984 and October1990. Ten year mortality was estimated. In study I, of a total of 103 patients, it was found that increased tumor growth, measured by the DNA SPF, was associated with elevated serum progesterone and smoking in the premenopasual patients and with aneuploidy in the whole group. In study II, comprising 128 patients, survival length related to hormone levels and SPF was evaluated in women who died of cervical cancer. In both pre- and postmenopausal women, who died of cervical cancer, SPF at or above 12% was correlated with reduced survival. There was significant positive correlation between a low serum estradiol/progesterone ratio and short survival in those premenopausal women who died of cancer (p=0.02). In study III, ten-year follow-up results in 128 women were compared with the expression of ten relevant tumor markers, assessed by immunohistochemistry. The overall ten-year survival rate in patients with low COX-2 and high CD4+ expression was 76%, versus 53% in the remaining women. The survival rate with absent p53 and high COX-2 expression in the tumors was 42%, versus 71%, while the corresponding figure for the combination of high COX-2 intensity and expression of c-myc was 27%, versus 62%. None of the single markers correlated significantly with outcome in the final Cox regression analyses, while five combinations did. Study IV addressed possible associations between selected tumor markers and cofactors in SCC. Ten tumor markers were examined in 128 patients. Smoking habits and previous oral contraceptive use were recorded. Serum estradiol and progesterone levels were evaluated in 80 women. Highly significant associations were found between strong c-myc staining and increased progesterone, low EGFR staining and high serum estradiol, and absence of p53 staining and smoking. There was an association between absence of p53 and high serum progesterone. In study V, LRIG1 expression was studied in 128 patients and was compared with expression of nine other tumor markers, smoking history, hormone levels, and prognosis. LRIG1 appears to be a significant prognostic predictor in early stage SCC, independent of the other tumor markers that were studied.  Diminished expression in advanced cancer stages and the inverse correlation to serum progesterone and smoking indicate that LRIG1 is a tumor suppressor in squamous cell cervical cancer. Conclusion: The results of these studies support a role of progesterone as a promoter of cervical cancer and indicate that smoking is associated with tumor progression. A combination of tumor markers might be of help in prognostic prediction. LRIG1 acts as a tumor suppressor. These findings might contribute towards greater understanding of prognostic prediction of squamous cell cervical cancer.

Thesis (Ph. D.)--University of Virginia, 2007. / Title from title page. Includes bibliographical references. Also available online through Digital Dissertations.

The proper maintenance of the pathways governing cell growth is critical to ensure cell survival and DNA fidelity. Much of our understanding of how the cell cycle is regulated comes from studies examining the relationship between DNA viruses and the mechanisms of cell proliferation control. There are numerous examples demonstrating that viruses can alter the host cell environment to their advantage. In particular, the small DNA tumor viruses, which include adenovirus, simian-virus 40 (SV-40), and human papillomavirus (HPV), can modulate the host cell cycle to facilitate viral DNA replication. Due to the fact that these viruses infect quiescent, non-cycling cells and lack the necessary enzymes and resources to replicate their DNA (e.g. DNA polymerase), the small DNA tumor viruses must activate the host cell replication machinery in order to expedite viral DNA replication. The capacity of these viruses to perturb normal cell proliferation control is dependent upon their oncogene products, which target p53 and members of the Retinoblastoma (RB) family of proteins and inactivate their respective functions. By targeting these key cell cycle regulatory proteins, the small DNA tumor viruses induce the infected host cells to enter S-phase and activate the components involved with host cell DNA synthesis thereby generating an environment that is conducive to viral DNA replication. In contrast, the larger, nuclear-replicating DNA viruses such as those from the family Herpesviridae, do not share the same stringent requirement as the small DNA viruses to induce the infected host cell to enter S-phase. The herpesviruses encode many of the components to stimulate nucleotide biosynthesis and the necessary factors to facilitate virus DNA replication including a viral DNA polymerase and other accessory factors. Additionally, many herpesviruses encode gene products that arrest the host cell cycle, in most instances, prior to the G1/S transition point. Inducing cells to growth arrest appears to be a prerequisite for the replication of most herpesviruses. However, in addition to encoding factors that inhibit the cell cycle, many herpesviruses encode proteins that can promote cell cycle progression in a manner similar to the small DNA tumor virus oncoproteins. By targeting members of the RB family and p53 protein, the herpesvirus proteins induce S-phase and activate S-phase associated factors that playa role in DNA replication. In this manner, the herpesviruses may promote an environment that is favorable for DNA replication. Consistent with the other herpesviruses, human cytomegalovirus (HCMV)induces human fibroblasts to growth arrest. However, in other cell types, virus infection causes cells to enter S-phase. In addition, HCMV replication requires several cellular factors that are present only during S-phase. Furthermore, HCMV induces the activation of S-phase-associated events as well as the increased expression of numerous S-phase genes following infection. HCMV encodes two immediate early (IE) gene products, IE1-72 and IE2-86, which can interact with members of the RB family of proteins. Additionally, the IE2-86 protein can bind to and inhibit p53 protein function. Given the functional resemblance between the HCMV IE proteins and the oncoproteins of the small DNA tumor viruses, we hypothesized that expression of the HCMV IE proteins could modulate cell cycle control. Specifically, we determined that expression of either IE1-72 or IE2-86 can induce quiescent cells to enter S-phase and delay cell cycle exit following serum withdrawal. Moreover, IE2-86 mediates this effect in the presence or absence of p53, whereas IE1-72 fails to do so in p53-expressing cells. Furthermore, both IE1-72 and IE2-86 induce p53 protein accumulation that is nuclear localized. Because IE1-72 fails to promote S-phase entry in cells expressing p53 and induces p53 protein levels, the mechanism by which IE1-72 alters p53 levels was examined. IE1-72 elevates p53 protein levels by inducing both p19ARF protein and an ATM-dependent phosphorylation of p53 at Ser15. IE1-72 also promotes p53 nuclear accumulation by abrogating p53 nuclear shuttling. As consequence of this IE1-72-mediated increase in p53 levels, p21 protein is induced leading to a p21-dependent growth arrest in cells expressing IE1-72. These findings demonstrate that the HCMV IE proteins can alter cell proliferation control and provide further support to the notion that HCMV, through the expression of its IE proteins, induces S-phase and factors associated with S-phase while blocking cell DNA synthesis, to possibly generate an environment that is suitable for viral DNA replication.

Made available in DSpace on 2015-05-14T12:14:17Z (GMT). No. of bitstreams: 1 arquivototal.pdf: 686892 bytes, checksum: cec59fce2ac377aef923c62e1cac0207 (MD5) Previous issue date: 2014-06-03 / Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - CAPES / We present an alternative quantum treatment for a generalized mesoscopic RLC circuit with time-dependent resistance, inductance and capacitance. Taking advantage of the Lewis and Riesenfeld and quadratic invariants we obtain exact nonstationary Schrödinger states for this electromagnetic oscillation system. Afterwards, we construct coherent states for the quantized RLC circuit and employ them to investigate some of the system s quantum properties, such as quantum fluctuations of the charge and the magnetic flux and the corresponding uncertainty product. In addition, we derive the geometric, dynamical and Berry phases for this nonstationary mesoscopic circuit. Finally we evaluate the dynamical and Berry phases for three special circuits. Surprisingly, we find identical expressions for the dynamical phase and the same formulae for the Berry s phase. / Apresentamos um tratamento quântico alternativo para um circuito RLC mesoscópico generalizado com resistência, indutância e capacitância dependentes do tempo. Usando o método de invariantes quânticos de Lewis e Riesenfeld e invariantes quadráticos, obtemos os estados de Scrhödinger não-estacionários para este circuito com oscilação eletromagnética. Em seguida, construímos os estados coerentes para o circuito RLC quantizado e os empregamos para investigar algumas das propriedades quânticas do sistema, tais como flutuações quânticas da carga, do fluxo magnético e o produto incerteza correspondente. Além disso, obtemos as fases geométricas, dinâmicas e de Berry para este circuito mesoscópico não estacionário. Finalmente, calculamos as fases dinâmica e de Berry para três casos particulares. Surpreendentemente, encontramos expressões idênticas para a fase dinâmica, e as mesmas expressões para a fase da Berry.

Made available in DSpace on 2015-05-14T12:14:21Z (GMT). No. of bitstreams: 1 arquivototal.pdf: 2152234 bytes, checksum: 8834f4fbf8cb68fc7b396555ae204283 (MD5) Previous issue date: 2010-12-02 / Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - CAPES / The graphene consists of a two-dimensional hexagonal structure formed only by carbon atoms. It is a peculiar molecule, because in low energy its Hamiltonian can be described by the Dirac operator and this gives it some unusual characteristics. In this work the index theorem will be applied to graphene. This allows to estimates the number of zero modes of geometric variants of graphene by means of topological features of these molecules. Finally, it is observed that the index of the Hamiltonian of this system can be described in terms of Berry phases. And so, it is investigated the possibility of doing holonomic quantum computation using the topology of such molecules. / O grafeno consiste em uma estrutura bidimensional hexagonal constituída apenas por átomos de carbono. Trata-se de uma molécula bastante peculiar, pois em baixas energias o seu hamiltoniano pode ser descrito pelo operador de Dirac e isso lhe confere características incomuns. Neste trabalho o teorema do índice será aplicado ao grafeno. Teorema que permite estimar o número de modos zero das variantes geométricas do grafeno por meio das características topológicas destas moléculas. Por fim, observa-se que o índice do hamiltoniano deste sistema pode ser descrito em termos das fases de Berry. E dessa forma, investiga-se a possibilidade de fazer computação quântica holonômica, a partir da topologia de tais moléculas.

Made available in DSpace on 2015-05-15T11:46:09Z (GMT). No. of bitstreams: 1 ArquivoTotalOsvaldo.pdf: 1490620 bytes, checksum: 022e9b1169cd35f90c2e82c9ae74fe26 (MD5) Previous issue date: 2008-12-19 / Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - CAPES / We present the own mathematic formalism to, first of all, study the holonomy interpretations of the adiabatic geometric phase presented by Berry-Simon and Aharanov-Anadan and, after this, the similirities found with the theory of representation groups, particularly, with the Borel-Weil-Bott theorem. These relations are made through classification of complex bundle line, and these results are used to introduce a cranked Hamiltonian. In general, we also show that the parameter space is a flag manifold or a submanifold of her and present a topologic argument of this space that indicates the relation between the structure Riemannian and the Berry s connection. / Apresentamos o formalismo matemático próprio para, primeiramente, estudarmos as interpretações holonômicas da fase geométrica adiabática apresentadas por Berry-Simon e Aharanov-Anadan e, em seguida, as similaridades encontradas com a Teoria de Representações de Grupos, em particular, com o teorema de Borel-Weil-Bott. Estas relações são feitas via classificação de fibrados linha complexos, e esses resultados são usados para introduzir um procedimento que trata a não-adiabaticidade e a adiabaticidade da fase de Berry por meio de uma modificação na hamiltoniana. Mostramos, também, que em geral, o espaço de parâmetros é uma variedade de bandeira ou uma subvariedade dela e apresentamos um argumento topológico desse espaço, que indica a relação entre a estrutura Riemanniana e a conexão de Berry.

Histone Nuclear Factor P (HiNF-P) is a known transcriptional regulator that is critical for the activation of replication dependent histone H4 genes during S phase. HiNF-P is a 65 kDa zinc finger protein that binds to its consensus binding sequence in the Cell Cycle Control Element (Site II) of the proximal promoter region of 11 of the 14 histone H4 genes. HiNF-P is a known co-factor of the global histone gene regulator and cyclinE/CDK2 substrate p220NPAT, however it was not known if this regulatory function reflected a physical interaction. In addition, other HiNF-P interacting proteins have yet to be identified. The work presented in this thesis identifies and characterizes HiNF-P interactions with various proteins within the cell, including p220NPAT. A yeast two-hybrid interaction screen identified candidate interacting proteins of HiNF-P and provided insight into novel cellular functions and transcriptional targets. A candidate yeast two-hybrid approach identified an interaction between HiNF-P and p220NPAT. This direct physical interaction links the cyclin E/CDK2 signaling pathway governing the G1/S phase transition with replication dependent histone gene transcription in S phase. An unbiased yeast two-hybrid screen for HiNF-P interacting proteins revealed an interactome library which suggests roles of HiNF-P in multiple cellular processes. This screen identified 67 candidate HiNF-P interacting proteins that are RNA processing factors, known and putative gene regulators, uncharacterized proteins, proliferation related proteins, as well as metabolic and signaling proteins. Identification of multiple RNA binding and processing factors, including the splicing cofactor, SRm300, links HiNF-P to mRNA processing. HiNF-P is potentially functioning in mRNA processing by interacting with these proteins directly and functioning in complex with them, or more likely, by recruiting these and other splicing factors to sites of transcription. We identified a number of known and putative gene regulators which are candidate HiNF-P interacting proteins. We isolated the atypical C2CH zinc finger protein, THAP7, a known transcriptional repressor. THAP7 interacts with HiNF-P by co-immunoprecipitation and co-immunofluorescence experiments. We show forced expression of THAP7 abrogates HiNF-P/p220 mediated activation of histone H4 gene transcription. THAP7 may represent a novel co-factor of HiNF-P and p220 mediated regulation of histone H4 genes. Identification of interacting proteins of HiNF-P that are involved in transcriptional regulation provides insight into other transcriptional targets of HiNF-P. HiNF-P is localized throughout the nucleus, presumably at multiple gene foci. These interacting proteins may represent novel co-factors of HiNF-P regulation of these other multiple target genes. HiNF-P has been identified as a regulator of cell cycle dependent histone genes, therefore we were interested in identifying other proliferation related proteins with which HiNF-P is interacting. We identified a number of proteins thought to be involved in cellular proliferation, including Ki-67 and an unknown protein XTP2. The functions of these proteins have not been identified. An interaction with HiNF-P might suggest a role for these proteins in histone gene regulation. In addition, Ki-67 has been implicated transcriptional control of ribosomal genes, although no role of HiNF-P in this function has been identified. HiNF-P is a known regulator of histone gene expression via a functional interaction with the global histone gene regulator and cyclin E/CDK2 substrate, p220. This thesis demonstrates HiNF-P directly interacts with the N-terminus of p220. This interaction requires multiple regions within the N-terminus including a LisH-like domain known to function in protein-protein interactions, a region (aa 121-145) known to be required for histone gene transactivation, and another uncharacterized region (209-318). In addition a phylogenically conserved region within the C-terminus of HiNF-P, the HiNF-P Specific Conserved Region (PSCR) is necessary for this interaction. Mutational analysis of these regions abrogates this interaction. HiNF-P and p220 co-localize at specific foci within the cell corresponding to Cajal bodies, which are known sites of histone gene clusters. This work shows that this interaction is necessary for histone gene transcriptional activation and HiNF-P dependent recruitment of p220 to histone H4 gene promoters. In addition HiNF-P as well as p220 interact with the Stem Loop Binding Protein (SLBP) and co-localize in situ. SLBP is a necessary factor for histone pre-mRNA processing events which also occur at Cajal bodies. These interactions provide evidence of the coupling of transcription and processing of histone genes and the involvement of common factors in both processes. This would allow for rapid production of abundant histone proteins which is needed during S phase. This thesis has identified multiple candidate interacting proteins of HiNF-P. These proteins establish HiNF-P as a protein involved in many cellular processes and mechanisms beyond transcriptional control of cell cycle dependent histone genes.

No description available.

Les mélanomes malins (MM) constituent le deuxième type de cancer le plus fréquent chez les jeunes adultes canadiens (entre 20 et 44 ans) ainsi qu’un des rares cancers dont l’incidence augmente annuellement. À moins que les MM ne soient excisés à temps par chirurgie, les chances de survie des patients sont pratiquement nulles puisque ce type de tumeur est très réfractaire aux traitements conventionnels. Il est bien connu que l’exposition aux rayons ultraviolets (UV), induisant des photoproduits génotoxiques, est une déterminante majeure dans l’acquisition de MM. À cet effet, la réparation par excision de nucléotides (NER) est la ligne de défense principale contre le développement des mélanomes puisqu’elle est la voie de réparation prépondérante en ce qui a trait aux dits photoproduits. Malgré cela, la contribution potentielle de défauts de la NER au développement des MM dans la population normale n’est toujours pas bien établie. Notre laboratoire a précédemment développé une méthode basée sur la cytométrie de flux qui permet de mesurer la NER en fonction du cycle cellulaire. Cette méthode a déjà mise en évidence qu’une déficience de l’activité de la protéine ATR peut mener à une déficience de la NER exclusive à la phase S dans des fibroblastes humains. Pareillement, nous avons démontré que plusieurs lignées cellulaires cancéreuses modèles comportent une déficience en NER en phase S, suggérant qu’une telle déficience puisse caractériser certains types de cancers. Nous avons voulu savoir si une déficience en NER en phase S pouvait être associée à une proportion significative de mélanomes et si le tout pouvait être attribuable à une diminution de l’activité d’ATR. Nos objectifs ont donc été de : (i) mesurer l’efficacité de la NER en fonction du cycle cellulaire dans les MM en comparaison avec les mélanocytes primaires, (ii) vérifier si le niveau d’activité d’ATR corrèle avec l’efficacité de la NER en phase S dans les lignées de MM et (iii) voir si un gène fréquemment muté dans les mélanomes (tels PTEN et BRAF) pouvait coopérer avec ATR pour réguler la NER en phase S dans les mélanomes. Nous avons démontré que 13 lignées de MM sur 16 ont une capacité grandement diminuée à réparer les photoproduits induits par UV spécifiquement en phase S. De plus, cette déficience corrèle fortement avec une réduction de l’activation d’ATR et, dans plusieurs lignées de MM, avec une phosphorylation d’Akt plus importante. L’utilisation d’ARN interférent ou d’un inhibiteur du suppresseur de tumeurs PTEN, a permis, en plus d’augmenter la phosphorylation d’Akt, de réduire la réparation des photoproduits et l’activation d’ATR dans les cellules en phase S. En addition, (i) l’expression ectopique de la protéine PTEN sauvage dans des lignées déficientes en PTEN (mais pas d’une protéine PTEN sans activité phosphatase) ou (ii) l’inhibition pharmacologique d’Akt a permis d’augmenter la réparation en phase S ainsi que l’activation d’ATR. En somme, cette étude démontre qu’une signalisation d’ATR dépendante de PTEN/Akt amenant à une réparation déficiente des photoproduits génomiques causés par les UV en phase S peut être déterminante dans le développement des mélanomes induits par UV. / Malignant melanoma (MM) is the second most frequent neoplasia among young Canadian adults (aged 20-44); moreover the incidence of this disease continues to rise annually at an alarming rate. Unless primary melanoma is diagnosed early and promptly resected the patient prognosis is dismal since this deadly tumour type metastasizes extremely aggressively and is highly refractory to conventional treatment protocols. It is well established that exposure to UV light, and subsequent induction of genotoxic DNA photoproducts, is a primary determinant in the initiation of MM. Furthermore nucleotide excision repair (NER) clearly represents a critical frontline defence against MM because it is the only human pathway designed to remove the aforementioned DNA photoproducts. Despite this, the potential contribution of NER defects to sporadic MM development in the general population has remained unclear. Our laboratory previously developed a novel flow cytometry-based assay to evaluate the efficiency of NER as a function of cell cycle. This method was employed to demonstrate that functional ATR kinase is strictly required for NER during S phase in primary human fibroblasts. Intriguingly we also reported that many model tumour cell lines are deficient in NER uniquely in S phase populations, raising the possibility that such a defect might be characteristic of certain types of cancers. We therefore hypothesized that a significant proportion of human MM cell lines may exhibit reduced NER capacity specifically during S phase, and that this in turn might be attributeable to reduced ATR signaling. To test this hypothesis, three major specific aims were proposed: (i) To measure the efficiency of NER as a function of cell cycle among a panel of human MM cell lines and in primary melanocytes; (ii) To investigate whether any correlation exists between NER status and ATR activity during S phase in human MM cell lines; (iii) To investigate whether frequently mutated genes in melanoma (eg., PTEN, BRAF) might cooperate with ATR to regulate S phase-specific NER in MM cell lines. We were able to demonstrate that, in fact, 13/16 MM cell lines display remarkably diminished capacity to remove UV-induced DNA photoproducts specifically during S phase. Furthermore this defect correlates strongly with reduced activation of ATR kinase and, for a majority of MM, higher Akt phosphorylation levels. RNAi-mediated knockdown of the PTEN tumour suppressor, while stimulating Akt phosphorylation as expected, also engenders reductions in both photoproducts repair and ATR activation in S phase cells. In addition, (i) ectopic expression in PTEN-null strains of wild type PTEN but not of PTEN variants deficient in phosphatase activity, or (ii) pharmacological inhibition of Akt, significantly rescue S phase-specific repair as well as ATR activation. Our data indicate that reduced PTEN/Akt-dependent ATR signaling leading to defective repair of UV DNA photoproducts uniquely during S phase may represent an heretofore unrecognized major determinant in sunlight-induced melanoma development.