Arterien und Venen sind aufgrund ihrer Funktion im Körper morphologisch, funktionell und genetisch unterschiedlich. Schon die großen Blutgefässe auskleidende Endothelzellen zeigen eine arteriovenöse Determinierung. Ausgehend von einer Mikroarray-Analyse der mRNA-Expression arterieller und venöser Endothelzellen der Nabelschnur wurde im Rahmen dieser Arbeit auf Moleküle des Notch-Signalwegs, Dll-4, Notch-4, Hey-1 und Hey-2 fokussiert, die präferenziell bis exklusiv arteriell exprimiert werden. Weitere Gene mit einem arteriellen Expressionsmuster, die im Rahmen der vorliegenden Arbeit analysiert wurden, sind Angiopoietin-2 und CD44s. Trotz der genetisch definierten Unterschiede ließ der Vergleich physiologisch relevanter Funktionen, wie Proliferation oder die Interaktion mit monozytären Zellen keinen vom endothelialen Zelltyp abhängigen Unterschied erkennen. Die im Matrigel ausgebildeten kapillar-ähnlichen Strukturen sind durch homogene, eng beieinander liegende Netzwerke charakterisiert. Studien über den Einfluss von Wachstumsfaktoren und Schubspannung auf die arteriovenöse Expression von Angiopoietin-2 deuten auf eine schubspannungsvermittelte Regulation der Gefäßstabilität und Differenzierung hin. Die in der Zellkultur durchgeführten Manipulationen, wie der Einfluss verschiedener Wachstumsfaktoren oder die Applikation unterschiedlicher Schubspannungen, erreichten in Bezug auf die Expression der untersuchten Markergene keine tiefer greifende Redifferenzierung des jeweiligen endothelialen Phänotyps. Der evolutionär hoch konservierte Notch-Signalweg ist präferenziell arteriell exprimiert, wobei Hey-2 ausschließlich arteriell exprimiert wird. In adulten Endothelzellen erfolgt die Hey-2-Regulation jedoch Notch-unabhängig. Die arteriovenöse Genexpression von Molekülen des Notch-Signalwegs ist unabhängig von der Schubspannung. Unter hypoxischen Bedingungen verringerte sich die Expression von Dll-4, Hey-1 / 2 dramatisch, ohne das jedoch physiologische Beeinträchtigungen zu beobachten waren. Die Expression des venösen COUP-TF II wird in arteriellen Endothelzellen nicht durch den Notch-Signalweg reguliert. Die Auswertung der Daten in der vorgelegten Arbeit lässt vermuten, dass die einmal festgelegte genetische Determinierung adulter Endothelzellen fixiert und äußeren Einflüssen gegenüber stabil und unumkehrbar ist. Dennoch ist eine gewisse Anpassungsfähigkeit der Endothelzellen an bestimmte Situationen möglich, die zwar die Ausprägung von Merkmalen des jeweilig anderen Phänotyps beinhaltet, jedoch nicht eine vollständige Redifferenzierung.

Doctor of Philosophy / Department of Biochemistry / Anna Zolkiewska / ADAMs (a disintegrin and metalloprotease) can influence multiple cellular processes involved in normal development and pathogenesis. ADAM12 expression levels are elevated in many pathological conditions including cancer, cardiovascular disease, and muscle regeneration. Recently, ADAM12 has emerged as a candidate cancer gene in a comprehensive genetic analysis of human breast cancers. The regulation of ADAM12 expression is poorly understood. Identification of new substrates for ADAM12 metalloprotease can expand our knowledge of processes in which ADAM12 is involved. Here, we show that ADAM12 expression is upregulated by transforming growth factor beta (TGF-beta), an essential signaling pathway for many cellular processes. This upregulation requires proteosomal degradation of a transcriptional repressor SnoN. Furthermore, breast cancer cell lines expressing high levels of SnoN have significantly impaired induction of ADAM12 by TGF-beta, suggesting an inverse correlation between SnoN and the extent of regulation of ADAM12 by TGF-beta. Additionally, we demonstrate that ADAM12 is one of the metalloproteases involved in shedding a Notch ligand, Delta like 1 (Dll1). The Notch signaling pathway plays a crucial role in cell fate decision during development and in adults. Cleavage of Dll1 by ADAMs occurs in cis and results in activation of Notch signaling in a cell-autonomous manner. Furthermore, the intracellular domain of Dll1 created after cleavage further enhances TGF-beta signaling in response to TGF-beta. Our analysis of breast cancer-associated mutations in the ADAM12 gene showed a lack of proper proteolytic processing of the ADAM12 protein and its mislocalization to the endoplasmic reticulum. Additionally, ADAM12 mutants show a dominant-negative effect on the processing of the wild-type ADAM12 and result in loss of the functional ADAM12 at the cell surface. Collectively, our results indicate a new mechanism of regulation of ADAM12 expression, expand the role of ADAM12 in the regulation of Notch signaling, and characterize cancer-associated mutations in the ADAM12 gene.

Development and regeneration of the vertebrate eye are the result of complex interactions of regulatory networks and spatiotemporally controlled gene expression events. During embryonic retinal development, the coordination of cell signaling and transcriptional regulation allows for a relatively homogenous sheet of neuroepithelial cells to proliferate and differentiate in-to a multilayered, light sensitive retinal tissue. Following injury, the retinas of many cold-blooded vertebrates, such as the zebrafish, undergo a proliferative response that results not only in new retinal cells of the correct type in the correct location, but also functional integration of these cells and restoration of vision. In order for embryonic retinal neurogenesis to proceed correctly, systems must be in place that restrict subsets of progenitor cells from differentiation. Pools of actively proliferating retinal progenitor cells are maintained to fill the needs of developmental processes and normal growth of the retina. In addition, subsets of radial glia in the retina retain the ability to de-differentiate into proliferating progenitor cells to meet the demands of the regenerating retina. All of these processes rely on the tight coordination of extrinsic and intrinsic cues, as well as regulation of gene expression by transcription factors. Although a considerable amount of work has been conducted to identify key regulators of retinal development and regeneration, many gene regulatory networks which include both master signaling pathways as well as individual transcription factors remain poorly characterized. Some of these factors implicated in retinal development and regeneration are members of the Hairy/Enhancer of Split (Hes) superfamily of genes, including the Hairy-related (Her) factors Her4 and Her9. Her transcription factors are basic-helix-loop-helix-orange (bHLH-O) transcription factors that bind to palindromic E- and N-box canonical sequences in the promoters of target genes. Her factors have been previously shown to play roles in a diverse array of developmental and neurogenic processes, including neural tube closure, floor plate development, somitogenesis, and development of various components of the central nervous system as well as the cranial sensory placodes. The roles of her4 and her9 in retinogenesis, however, remain undefined. To determine the possible roles of her4 and her9 factors in the retina, I characterized the expression patterns of these factors during developmental retinal neurogenesis and/or regeneration, examined loss of function phenotypes, and identified signaling pathways that modulate expression of these factors. Chapter 1 of this dissertation provides an overview of vertebrate retina and retinal development, the known functions of her4 in other tissues, and the Notch-Delta signaling pathway. Chapter 2 provides evidence that her4 is a primary effector of the Notch pathway during retinal development, and examines the role of her4 expressing cells during regeneration of the mature zebrafish retina within the context of both chronic and acute photoreceptor damage paradigms. In addition, generation and validation of the transgenic her4:Kaede zebrafish which was used to identify the lineage of her4-expressing cells is described. Characterization of her9 during retinal development, identification of the retinoic acid signaling pathway as a regulator of her9 expression in the retina, and the role her9 plays during retinal vasculogenesis are discussed in Chapter 3. Chapter 4 discusses the generation of her9 knock-out zebrafish lines using clustered regularly interspaced short palindromic repeats (CRISPR)/Cas9 technology and characterization of mutant phenotypes in mosaic her9 mutant F0 fish. In addition, in Chapter 4 I also discuss the screening processes used to identify and characterize genetic lesions in the her9 allele and establish various lines that stably transmit deleterious her9 alleles in the germline, and provide preliminary data of the her9 mutant phenotype. Finally, in Chapter 5 I discuss conclusions from the data generated from this dissertation, additional studies that would expand upon this work, and the implications of these results on the broader understanding of retinal development and regeneration. My dissertation incorporates reverse genetic analysis in zebrafish, biochemical analysis, transgenesis, and various molecular approaches to help better understand the roles of her4 and her9 during retinal neurogenesis. Moreover, these studies may also contribute to a better understanding of retinal development, and disease pathogenesis. It is my hope that this work could also ultimately contribute, even if in some small way, to the goal of enabling human patients who have suffered from vision loss a means by which a damaged retina could be regenerated and functional vision restored.

La signalisation Notch est une voie extrêmement conservée depuis Caenorhabditis elegans jusqu'aux mammifères en passant par Drosophila melanogaster. Elle est requise dès le développement embryonnaire et contrôle de nombreux processus comme la différenciation et le choix du destin cellulaire, la prolifération, ou encore le maintien de stocks de cellules souches et l'apoptose. La voie est basée sur l'activité du récepteur Notch, un hétérodimère transmembranaire qui est activé lors de contacts intercellulaires par la liaison de ses ligands qui sont également des protéines transmembranaires. Suite à cette activation, le récepteur subit une série de deux clivages protéolytiques internes, respectivement catalysés par une métalloprotéase ADAM et par le complexe multi-protéique γ-secrétase. Ce dernier clivage libère le domaine intracellulaire de Notch dans le cytoplasme, cette forme étant ensuite transportée dans le noyau où elle active directement la transcription des gènes cibles de la voie Notch en se liant à ses co-facteurs de transcription, CSL et Mastermind. Le récepteur Notch est régulé à diverses étapes par des processus d'ubiquitination : la monoubiquitination du récepteur Notch activé contrôle son clivage γ-secrétase, la polyubiquitination du récepteur Notch non activé et endocytosé contrôle sa dégradation dans les lysosomes. Les processus d'ubiquitination sont réversiblement contrôlés par la déubiquitination. Or, aucune déubiquitination n'a été identifiée dans la voie de signalisation Notch. Mon projet consistait à identifier les déubiquitinases - les enzymes responsables de la déubiquitination - impliquées dans les deux processus d'ubiquitination décrits précédemment. Nous avons pour cela mis au point deux cribles en immunofluorescence permettant de tester une banque de shRNA qui cible l'expression des 91 déubiquitinases connues ou putatives du génome humain. Le premier crible m'a permis d'identifier eIF3f, une sous-unité du facteur d'initiation de la traduction eIF3, comme une nouvelle protéine portant une activité déubiquitinase. eIF3f est recrutée au récepteur Notch via l'E3 ubiquitine ligase Deltex, et régule positivement la voie de signalisation Notch en déubiquitinant le récepteur Notch activé avant le clivage γ-secrétase, favorisant ainsi la production de la forme transcriptionnellement active de Notch. Par ailleurs, le deuxième crible a identifié plusieurs déubiquitinases candidates, dont le rôle dans la régulation du trafic intracellulaire du récepteur Notch non activé est en cours de validation.

T lymphocytes are considered an essential and advanced component of the immune system, since these cells are able to discriminate self from non-self, start up an immune reaction and further develop into memory cells. However, therapies based on the use of patient derived newly generated T cells reinoculated into humans do not exist. This is due to difficulties in replicating the peculiar conditions required for T cell development in vitro. The systems developed so far are based on the use of animal or unrelated human thymic tissue and therefore they would not be adequate to be used in any clinical application. Having conjectured that human skin cells, rearranged in a threedimensional fashion, would be able to support the development of human T lymphocytes from hematopoietic stem cells, we developed a model consisting of human skin keratinocytes and fibroblasts arrayed on a synthetic matrix so to create a prototype suitable to be translated into the clinic. In this way we were able to induce few hundred cord blood CD34⁺ haematopoietic stem cells to entirely develop into mature CD4⁺ or CD8⁺ T lymphocytes in vitro. However, circulating adult peripheral CD34⁺ precursors failed to survive in the same conditions. Finally we were able to explain our success as consequence of strong induction of the Notch delta ligand Dll-4 by the keratinocytes cultured in the construct. In synthesis, we report here for the first time that skin keratinocytes, in the presence of fibroblasts and reconfigured in a three-dimensional arrangement, are able to induce the differentiation of a minimal amount of cord but not adult blood stem cells into fully differentiated T cells by acting through the Dll-4 Notch signaling pathway in vitro.

Mon travail de thèse a été principalement de comprendre comment les voies de signalisations contrôlent la différenciation et la morphogenèse de l'embryon de vertébré. Les communications entre cellules sont à la base du développement des métazoaires et de leurs évolutions et sont souvent impliquées dans les pathologies humaines. J'ai profité de la puissance des approches fonctionnelles chez le xenope pour essayer de comprendre comment les signaux BMP, FGF, Nodal et Notch sont intégrés dans le temps et l'espace afin de coordonnées différentes décisions cellulaires. Premièrement, nous avons montré que la voie Nodal est active avant la transition mid-blastuléene et permet l'induction du mesedoderme à travers l'auto régulation de l'expression de ces ligands Xnr5 et Xnr6 (Skirkanish et al. soumis à Development). Deuxièmement, j'ai montré que différent ligand de la voie Nodal contrôlent séquentiellement l'induction du mesendoderm et les mouvements de gastrulation (Luxardi et al., Development, 2010). Troisièmement, j'ai montré qu'un cinquième ligand de la voie Nodal, Xnr4, contrôle la régionalisation médio latérale de la plaque neurale ouverte et la neurogenèse. Quatrièmement, nous avons montré qu'une famille de microARN, nir449, contrôle la différenciation des cellules multi-ciliées à travers son action sur un ligand de la voie Notch, Delta-1 (Marcet et al. Nature Cell Biology, en révision). Enfin, j'ai découvert une nouvelle fonction des signaux BMP dans le control de la spécification des épithéliums muco cilié. / My PhD work generally addressed how signaling pathways control differentiation and morphogenesis in the vertebrate embryo. intercellular communication is the basis of metazoan development and evolution and is often involved in human pathologies. I take advantage of the power of functional approaches in the Xenopus embryo, to try and understand how BMP, FGF, Nodal and Notch signals are intragrated in time ans space to coordinate vatious cellular decisions. First, we showed that Nodal signaling is activated before the mid blastula transition and allow mesendoderm induction through the auro regulation of the expression of its ligands Xnr5 and Xnr6 (Skirkanish et al., submitted to development). Second, I have demonstrated that in a gastrulation movements (Luxardi et al., Development, 2010). Third, I have demonstrated that a fifth Nodal ligand, Xnr4, control medio-lateral patterning of the open neural plate and neurogenesis. Froth, we showed that a microRNA family, mir449, controls differenciation of multiciliated cells through the regulation of the Notch ligand Delta-1 (Marcet et al. Nature Cell Biology, in revision). Last, I have discovered a novel function of the BMP pathway in the control of cell type specification within the epidermal mucocialiary epithelium

Automotive structures contain hundreds of welds. Most of the time, failure occurs at the weld ends (weld toe or weld root). Thus, welds affect the structural integrity of an entire structure. Thus, the modeling of welded joints is very important from a design point of view. In this research, the primary aim is to develop a weld model to assess the structural integrity of welded joints based on stress analysis by using a finite element method (FEM) and through experimental validation. The stress distribution in welded joints mainly depends on the geometry, loading type and material properties. Therefore, it is greatly challenging to develop a weld model that can predict the behavior of stress distribution and weld stiffness in joints. There are several approaches for modeling welded structures by using FEM. However, the effective notch stress approach has been used for weld joint modeling in this research which is gaining in popularity in the automotive industry. The effective notch stress approach calculates the local stress at a notch (weld toe or root) assuming that there is linear-elastic material behavior. Parameter tuning of the weld model has been done to obtain the lowest validation error with the experimental results. The effective notch radius is chosen as the only tuning parameter in this weld model. Through this investigation, the weld model based on the effective notch stress has been experimentally validated for the first time through parameter tuning. Two different types of welded joints are investigated. Both types of joints are analyzed with a fine meshed 3D finite element model by using the effective notch stress approach. The FEM model of these two joints is validated with the experimental results. The calculated FEM results show a good agreement with the experimental results (obtained by using strain gages) for the ASTM model. This modeling technique is also validated with real world data of a bus window pillar. The model of the bus window pillar shows a close approximation with the experimental results. / October 2016

<p>Naučna rasprava izložena u ovoj tezi bavi se analizom<br />kvaliteta električne energije. Visok nivo električne<br />energije podrazumeva da su napon napajanja i struja<br />potrošača idealne sinusoide sa tačno određenom<br />amplitudom i učestanošću. Bilo kakva odstupanja od<br />idealnog nazivaju se izobličenja i najčešće se<br />karakterišu sa harmonicima.<br />Poslednjih godina dolazi do naglog razvoja<br />poluprovodničkih komponenata. Takve komponente su<br />uticale na ubrzan razvoj snažnih uređaja energetske<br />elektronike. Ti uređaji su nelinearnog karaktera, što<br />dovodi do pojave harmonika u signalima napona i struja<br />elektroenergetskog sistema. Prvi problem kojim se bavi<br />ova teza je analiza talasnih oblika struja ispravljača.<br />Metode primenjene za analizu su wavelet transformacija<br />(VT) i modulated overlapped transformacija (MLT). MLT<br />nadoknađuje nedostatak VT da dekomponuje signal u<br />odgovarajuće podopsege koji mogu sadržati i više<br />harmonika i daje tačnu informaciju o svakom harmoniku.<br />Obe metode su pogodne za offline analizu. Za online analizu<br />predložen je hibridni metod baziran na diskretnoj<br />Furijeovoj transformaciji (DFT) i adaptivnom pojasnom<br />filteru (EPLL). Hibridni metod je zadržao dinamički<br />odziv DFT-a, dok je EPLL obezbedio sinhronizaciju sa<br />osnovnom učestanošću sistema. Hibridni metod daje<br />dovoljno tačnu informaciju o osnovnom i višim<br />harmonicima samo ako su njihove učestanosti ceolobrojni<br />umnožak učestanosti osnovnog harmonika. U slučaju pojave<br />interharmonika, odnosno kada taj odnos više ne važi,<br />hibridni metod ne daje tačne rezultate. Za analizu takvih<br />signala predložen je novi metod, koji je baziran na<br />adaptivnom diskretnom pojasnom filteru (ANF) t.j. metod<br />koristi diskretni pojasni filter za modelovanje<br />harmonijskih komponenata u ulaznom signalu, dok se<br />prošireni Kalmanov filter (EKF) koristi kao adaptivni<br />mehanizam. Novi metod je preuzeo osobinu ANF-a da može<br />adaptivno da prati promene učestanosti i osobinu EKF-a<br />da ima bolji dinamički odziv. Metode su implementirane<br />na digitalnom procesoru za obradu signala i upoređene sa<br />postojećim metodama. Metode pokazuju prednosti u odnosu<br />na druge metode.</p> / <p>Scientific research in this thesis discusses power quality<br />analysis. High power quality assumes that both the voltage<br />power supply and the load current are ideal sinusoidal signals<br />with a precisely defined amplitude and frequency. Any<br />deviations from this ideal vaweform are considered as distortion<br />and are characterised by harmonics.<br />Over the last few decades, there has been a rapid development<br />of semiconductor components. Such components made an<br />impact on the fast development of power electronics devices.<br />These devices are nonlinear, introducing harmonics in both<br />voltage and current of the power grid. The first issue researched<br />in this thesis is the analysis of the rectifier voltage and current<br />waveforms. Methods used for the analysis are the wavelet<br />transform (WT) and the modulated overlapped transform (MLT).<br />The MLT overcomes the drawback of the WT, which<br />decomposes the signal into subbands that can contain more<br />harmonics, and gives accurate information about every<br />harmonic. Both methods are suitable for offline analysis. For<br />online analysis, a hybrid method is proposed, based on the<br />discrete Fourier transform (DFT) and the adaptive notch filter<br />(EPLL). The hybrid method retains a good dynamic response of<br />the DFT whereas the EPLL provides a synchronisation with the<br />fundamental system frequency. The hybrid method provides<br />accurate information on the fundamental and the higher<br />harmonics only if their frequencies are integer multiples of the<br />fundamental frequency. In the case of interharmonics, i.e. when<br />this integer ratio is not valid, the hybrid method does not provide<br />accurate results. In order to analyse such signals, a new<br />method is proposed. It is based on discrete adaptive notch filter<br />(ANF), i.e. the method uses a discrete notch filter for modeling<br />the harmonic components in the input signal, whereas an<br />Extended Kalman Filter (EKF) is used as an adaptation<br />algorithm. The adaptive notch Kalman filter inherited the<br />property of the ANF to adaptively track changes in the<br />frequency and the property of the EKF to have a faster dynamic<br />response. Methods have been implemented in a digital signal<br />processor and compared with the existing ones. The methods<br />show advantages compared to other methods.</p>

The skin is the site where two of the most common types of epithelial cancer, basal cell carcinoma (BCC) and squamous cell carcinoma (SCC), arise. In this work, we have investigated how ASPP2, a member of a family of proteins that interact with the p53 family, can affect skin tumourigenesis. ASPP2 is expressed in the squamous epithelia of various organs, localising exclusively in the upper and most differentiated layers. We show here that Balb/c ASPP2-null and heterozygous mice develop spontaneous SCCs. To investigate how the absence of ASPP2 from the epithelial compartment could lead to tumour formation, we analysed ASPP2’s relationship with pathways involved in the normal homeostasis of the epithelium, such as p63 and Notch. &Delta;Np63 is the main p63 isoform expressed in the adult epidermis, and its function is to drive the proliferation of the basal keratinocytes. Aberrant or misplaced activation of &Delta;Np63 in the epithelium is a known initiating cause for SCC. Consistent with this, &Delta;Np63 was found to be highly expressed in tumours derived from ASPP2-deficient mice. Our results indicate that ASPP2 is important in limiting &Delta;Np63 expression in the differentiated epithelium, preventing cell proliferation in the upper layers of the skin. This is achieved by antagonising &Delta;Np63 transcript and protein expression, resulting in a mutually exclusive expression pattern during differentiation of keratinocytes, as well as in epithelial cancer. ASPP2 expression was found reduced or lost in human SCC cell lines and during head and neck cancer progression, reflecting what was observed in ASPP2-deficient mice. Overall, our results indicate a possible mechanism by which p63 expression can be regulated in the skin, and provide a new model for the spontaneous formation of SCC in vivo. Additionally, we found that ASPP2 can cooperate with and enhance the activity of skin pro-differentiation pathways, such as Notch. In contrast to p63, ASPP2 and Notch1 are co-expressed in the differentiated layers of the squamous epithelium. Moreover, ASPP2 can interact with components of Notch nuclear transcriptional machinery, and it is shuttled into the nuclear compartment upon activation of Notch pathway. This recruitment results in modulation of Notch transcriptional activity on specific target genes with a differential pattern of binding sites, providing new insights into the understanding of Notch transcriptional regulation.

Delta-like ligand 4 (DLL4) is a ligand for the Notch family of receptors. DLL4 is an important regulator of angiogenesis and DLL4 blockade promotes non-productive angiogenesis and delays tumour growth. The aim of this thesis was to investigate the effects of anti-DLL4 therapy in solid tumours in combination with a clinically relevant dose of ionising radiation (5 Gy; IR) and to analyse alterations in the Notch pathway induced by the treatments. Combining both treatments resulted in a greater than additive tumour growth delay in LS174T tumours, compared to either treatment alone. DLL4 blockade dysregulated vasculature and increased necrosis in LS174T and HCT-15 (DLL4-expressing and negative cell lines respectively) tumours within 3 days after treatment, but no changes were observed with IR alone. Additionally, combined IR and anti-DLL4 treatment of FaDu tumours (another DLL4-negative cell line) by our colleagues, also resulted in a supra-additive growth delay. These results show that combining IR with DLL4 blockade is an effective strategy for prolonging tumour growth delay and suggest that the stroma/vasculature provide the main therapeutic target for the anti-DLL4 therapy. Analysis of Notch pathway shows that IR upregulated Jag1 in tumour cells, and may inhibit Notch and downregulate DLL4 in the stroma. These changes may potentially affect tumour vessels and response to anti-DLL4 therapy. In vitro, anti-DLL4 therapy induced proliferation in quiescent contact-inhibited endothelial cells and also appeared to abrogate IR-induced inhibition of migration. These results suggest that DLL4 may be important in maintaining vessel quiescence and that IR may in part decrease migration through Notch signalling. Combining IR and DLL4 blockade to target tumour growth is an effective and well tolerated strategy and warrants further validation and refinement to be translated into clinical practice.