Aryl hydrocarbon receptor nuclear translocator (ARNT) is an important player in xenobiotic and hypoxic responses. In addition to this, my mentor has shown that ARNT is an integral cofactor of NF-kB signaling. However, these initial observations of ARNT-mediated NF-kB modulation were based on simultaneous suppression of the two ARNT isoforms, isoform 1 and 3, and therefore precluded the isolated examination of each isoform’s function. We show here that lymphoid malignancies exhibit higher levels of ARNT isoform 1 compared to ARNT isoform 3. However, normal T and B lymphocytes are seen to harbor equal levels of ARNT isoform 1 and 3. We hypothesize that the increase in ARNT isoform 1 is necessary for the growth of these cancer cells as suppression of isoform 1 resulted in S-phase cell cycle arrest. These findings reveal that ARNT isoform 1 potentiates cell growth by antagonizing a p53 cell cycle inhibitory mechanism and this further suggests that ARNT targeted therapies would benefit chemotherapy regimens. / text

Thesis (Ph. D.)--University of Washington, 2005. / Vita. Includes bibliographical references (leaves 98-112).

The TP53 gene can express protein p53 and 11 another isoform proteins N- and/or C-terminally truncated by using two promoters and alternative splicing. The p53 isoforms are found in both healthy and tumorous tissues, and are intensively studied in relation to cancer diagnosis, prognosis and treatment. In this work, the p53 isoforms were subcloned into expression vectors by LR reaction adapted from Gateway cloning system. The expression vectors were designed for protein production by bacteria E. coli strain BL-21. The constructs containing p53 isoforms were encoded together with two fusion proteins, glutathione-S-transferase and polyhistidine tag under the control of the same promotor for the affinity chromatography protein isolation. All the clones underwent Sanger sequencing for verification after homologous recombination. Sequencing confirmed the accuracy of the subcloned isoforms p53, 133p53, 160p53, p53 and 160p53 into an expression vector pDEST15-N6xHis-GST-GW-DEST. Protein 160p53 was expressed in BL-21 and isolated using both HIS and GST tag interacion. Isolation using HIS tag yielded in a higher protein concentration then the isolation mediated by the interaction of the glutathione-S-transferase.

Secretory Phospholipase A2 (sPLA2) represents a diverse class of roughly 20 enzymes, 12 of which have been identified in humans. These isoforms can be distinguished based on their tissue distribution, structure, and regulation. These differences in structure between the isoforms lead to the question does the enzyme's ability to respond to physical changes in the membrane during apoptosis governed by structure. S49 cell apoptosis was initiated by treatment with either the glucocorticoid dexamethasone (6–48 h) or with the calcium ionophore, ionomycin. The rates of hydrolysis were compared with each treatment condition for various concentrations of snake venom and human groups (hG) IIA, V, and X isoforms. The data were analyzed using a model that explicitly evaluates both the adsorption of enzyme to the membrane surface (step 1) and subsequent binding of substrate to the active site (step 2). Increased hydrolysis during apoptosis appeared to reflect step 2 for both the snake venom and the hGX enzymes. In contrast, apoptosis promoted step 1 for hGV. For hGIIA, the kinetics were more complex suggesting additional mechanisms beyond these two steps. These observations are rationalized in terms of the structure of the various isozymes and physical changes during apoptosis, including reduction in the strength of lipid/neighbor interactions and increased bilayer surface charge.

Thesis (Ph.D.)--University of Alabama at Birmingham, 2009. / Title from PDF title page (viewed on Feb. 2, 2010). Includes bibliographical references.

Os canais seletivos a ânions dependente de voltagem (VDACs) são um grupo de proteínas, primeiramente identificadas na membrana mitocondrial externa, capazes de formar estruturas de poros hidrofílicos em membranas. As VDACs são conhecidas pela sua função essencial no metabolismo celular e nos estágios recentes de apoptose. Em mamíferos, foram identificadas três isoformas de VDACs (VDAC1, 2 e 3). Uma pesquisa proteômica, consistindo de eletroforese bi-dimensional seguida por western blotting com anticorpos anti-VDAC 1, anti-VDAC 2 e anti-VDAC 3 e espectrometria de massas com fonte de ionização/desorção à laser assistido por matriz e tempo de vôo foi utilizada para estudar a expressão das isoformas de VDAC em mitocôndrias cerebrais de aves, ratos e bois. Foi estudada a possibilidade que diferenças na expressão relativa das isoformas de VDAC possam ser um fator determinante da proporção espécie-dependente dos sítios de ligação da hexoquinase tipo A: tipo B nas mitocôndrias cerebrais. Os spots foram caracterizados, e a intensidade de sinal foi comparada entre os spots. VDAC1 e VDAC2 foram divididas dentro de múltiplos spots. A VDAC1 foi dividida em dois spots nos géis bi-dimensionais realizados com amostras de cérebros de ratos e bois, e três spots para cérebros de aves. A VDAC2 foi separada em três, cinco e dois spots para cérebros de ratos, bois e aves, respectivamente. Os resultados reportam uma heterogeneidade de carga das VDACs 1 e 2 nos cérebros analisados. A VDAC1 foi a mais expressa das três isoformas. Além disso, a expressão da VDAC1 mais VDAC2 foi muito maior em cérebros de aves e bois do que em cérebros de ratos. Mitocôndrias de cérebro de aves mostraram uma maior expressão de VDAC1 e menor de VDAC2. As mitocôndrias de cérebro bovino apresentaram os níveis mais altos de VDAC2. A VDAC3 não foi detectada nos cérebros das espécies estudadas. / The voltage dependent anion selective channels (VDACs) are a group of proteins first identified in the mitochondrial outer membrane that are able to form hydrophilic pore structures in membranes. VDAC are known to play an essential role in cellular metabolism and in the early stages of apoptosis. In mammals, three VDACs isoforms (VDAC1, 2, 3) have been identified. A proteomic approach, consisting of two dimensional electrophoresis, followed by western blotting with anti-VDAC 1, anti-VDAC 2 and anti-VDAC 3 and by matrix assisted laser desorption/ionization time of flight mass spectrometry was used to study the expression of VDAC isoforms in rat, bovine and avian brain mitochondria. We were studying the possibility that differences in the relative expression of VDAC isoforms may be a factor in determining the species-dependent ratio of type A: type B hexokinase binding sites on brain mitochondria. The spots were characterized, and the signal intensities among spots were compared. VDAC1 and VDAC2 were divided into multiple spots. VDAC1 was divided in two spots in two dimensional gels of rat and bovine brains and three spots in avian brains. VDAC2 was separated into three, five and two spots in rat, bovine and avian brains, respectively. The results report charge heterogeneity of VDACs 1 and 2 in the analyzed brains. VDAC1 was the most abundantly expressed of the three isoforms. Moreover the expression of VDAC1 plus VDAC2 was much higher in avian and bovine brains than in rat brains. Avian brain mitochondria showed the highest expression of VDAC1 and the lowest of VDAC2. Bovine brain mitochondria had the highest levels of VDAC2. No VDAC 3 was detected in studied species brains.

The Wilms' tumour suppressor gene Wt1 is a key regulator of embryonic development and tissue homeostasis. In humans, mutation in the gene may lead to childhood kidney cancer, severe glomerular kidney diseases, gonadal dysgenesis and, in rare cases, heart diseases. The importance of WT1 in embryonic development is related to its crucial function in the regulation of two cellular plasticity processes: the epithelial to mesenchymal transition (EMT) and the reverse process, the mesenchymal to epithelial transition (MET). WT1 expression persists during the waves of EMT and MET that generate certain mesodermal tissues. In fact, WT1 is a major regulator of both transitions and it is essential for the survival of mesenchyme progenitors. Furthermore, it has been proposed that WT1 is required for the derivation of progenitors from different mesothelia, possibly through an EMT. Progenitors expressing WT1 are believed to differentiate into different cell types, giving rise to coronary vasculature, adipocytes and hepatic stellate cells. In my PhD I aimed to investigate the instructive role of different WT1 isoforms. To address this, the first goal was to generate a single plasmid that would accommodate all necessary components of an inducible system, in order to derive cellular models for the inducible expression of WT1 single isoforms. Second, I aimed to understand the processes that the single variants were sufficient to drive. Therefore, I started with the establishment of two cellular models for the inducible expression of the main four isoforms of WT1 (with or without the exon 5 and/or the KTS, here referred as +/+, +/-, -/+ and -/-). I cloned different plasmids carrying doxycycline inducible WT1 isoforms and derived single stable clones in two epithelial kidney cell lines that do not express WT1: the MDCK and the IMCD3 cells. I then analysed the expression profiles of the clones, using either microarray or RNA sequencing, and performed cellular assays to characterize the cells after WT1 induction. Overall, WT1 induction did not affect cell growth, cell cycle, cell migration or anchorage independent growth, suggesting that the expression of WT1 in these two cell lines does not change their oncogenic potential. The expression analysis of the MDCK cells suggested that the induction of WT1 isoforms activates an inflammatory response, leading to the overexpression of several cytokines. Moreover, the -/+ isoform speciffically caused the upregulation of fibrotic markers and the rearrangement of the actin cytoskeleton. Interestingly, the expression of the mesothelial marker UPK3B increased following the induction of the -/+ isoform. Because the expression of the -/+ variant led to the most signifficant isoform-specific changes in both cell lines, I focused on this isoform for the validation of the transcriptomic data of the IMCD3 cells. I confirmed that the induction of WT1 -/+ in the IMCD3 cells leads to the upregulation of fibrotic markers, increases cell adhesion and activates the AKT and MAPK pathways. Moreover, there was a significant overexpression of different mesothelial markers and, importantly, of key regulators and markers of developmental processes, such as adipogenesis, skeletal and cartilage development, as well as angiogenesis. I then dissected the timing of expression of some specific markers and regulators, analysing the levels of the genes at different time points after WT1 -/+ induction. The preliminary results intimate that WT1 -/+ might induce epithelial cells in the direction of cartilage-skeletal tissue and fat, possibly through a mesothelial intermediate. The data also suggest that the induction of this isoform initiates an EMT, possibly followed by an MET, as the levels of expression of the differentiation markers and regulators increase. To validate the proposed instructive role of WT1, it will be of crucial importance to determine both RNA and protein levels of markers and regulators at even later time points, both in IMCD3 cells and in a model of inducible embryonic stem cells, which is currently under development. In the future, it will be important to address the relevance of these findings in vivo and to dissect the molecular mechanisms.

"November 1999." / Thesis (Ph.D.)--Chinese University of Hong Kong, 1999. / Includes bibliographical references (p. 131-152). / Electronic reproduction. Hong Kong : Chinese University of Hong Kong, [2012] System requirements: Adobe Acrobat Reader. Available via World Wide Web. / Mode of access: World Wide Web. / Abstracts in English and Chinese.

Ng Kai-on. / "July 2001." / Thesis (Ph.D.)--Chinese University of Hong Kong, 2001. / Includes bibliographical references (p. 162-180). / Electronic reproduction. Hong Kong : Chinese University of Hong Kong, [2012] System requirements: Adobe Acrobat Reader. Available via World Wide Web. / Mode of access: World Wide Web. / Abstracts in English and Chinese.

Thesis (Ph. D.)--University of Washington, 2003. / Vita. Includes bibliographical references (leaves 88-103).