Indiana University-Purdue University Indianapolis (IUPUI) / Hydrocephalus is a neurological disorder characterised by the pathological accumulation of cerebrospinal fluid (CSF) within the brain ventricles. Surgical interventions, including shunt placement, remain the gold standard treatment option for this life-threatening condition, despite these often requiring further revision surgeries. Unfortunately, there is currently no effective, pharmaceutical therapeutic agent available for the treatment of hydrocephalus. CSF is primarily produced by the choroid plexus (CP), a specialized, branched structure found in the ventricles of the brain. The CP comprises a high resistance epithelial monolayer surrounding a fenestrated capillary network, forming the blood-CSF barrier (BCSFB). The choroid plexus epithelium (CPe) critically modulates CSF production by regulating ion and water transport from the blood into the intraventricular space. This process is thought to be controlled by a host of intracellular mediators, as well as transporter proteins present on either the apical or basolateral membrane of the CPe. Though many of these proteins have been identified in the native tissue, exactly how they interact and modulate signal cascades to mediate CSF secretion remains less clear. Transient potential receptor vanilloid 4 (TRPV4) is a non-selective cation channel that can be activated by a range of stimuli and is expressed in the CP. TRPV4 has been implicated in the regulation of CSF production through stimulating ion flux across the CPe. In a continuous CP cell line, activation of TRPV4, through the addition of a TRPV4 specific agonist GSK1016790A, stimulated a change in net transepithelial ion flux and increase in conductance. In order to develop a pharmaceutical therapeutic for the treatment of hydrocephalus, we must first understand the mechanism of CSF secretion in health and disease. Therefore, a representative in vitro model is critical to elucidate the signaling pathways orchestrating CSF production in the CP. This research aims to characterize an in vitro culture model that can be utilized to study both the BCSFB and CSF production, to investigate and identify additional transporters, ion channels and intracellular mediators involved in TRPV4-mediated signaling in the CPe, primarily through a technique called Ussing-style electrophysiology which considers electrogenic ion flux across a monolayer. These studies implicated several potential modulators, specifically phospholipase C (PLC), phosphoinositide 3-kinase (PI3K), protein kinase C (PKC), intermediate conductance K+ channel (IK), transmembrane member 16A (TMEM16A), cystic fibrosis transmembrane conductance regulator (CFTR) and protein kinase A (PKA), in TRPV4-mediated ion flux.

The liver is responsible for lipid and glucose metabolism, protein and bile synthesis and the biotransformation of xenobiotics. These functions, performed by hepatocytes, are dependent on heterotypic interactions with other liver cell types and the stratified microarchitecture of the organ. In vitro liver models provide insights into the role of each cell type and perturbations upon external stimuli. Despite the dissimilarities to in vivo and rapid dedifferentiation, most liver studies utilize hepatocyte monocultures. These models lack heterotypic interactions causing inaccurate assessments of toxicity and disease. Only a limited number of 3D hepatic models incorporate the major liver cell types, and these cultures primarily focus on the hepatocyte response. We have developed 3D liver models that include all major hepatic cell types and recapitulate the layered architecture of the organ. These models maintain hepatic functions for up to four weeks and can be used to isolate the role and response of each cell type. We used these models to study two critical aspects of the organ -- acute hepatotoxicity and liver fibrosis. There are tens of thousands of chemicals with undetermined effects on the human body. High concentrations of xenobiotics can cause acute liver damage and failure. Liver impairment can result in multiple organ failure, hepatic encephalopathy and death. Therefore, it becomes critically important to investigate hepatotoxicity in a time, cost and resource effective manner. Our 3D liver models were validated for hepatotoxicity testing with acetaminophen, a prototypic drug. We then adapted and optimized the models for high-throughput hepatotoxicity testing with automated procedures and primary human hepatic cells. Liver fibrosis and cirrhosis are well-established consequences of chronic chemical exposure, infection and alcoholism. The initiating factors, end stages and resolution of fibrosis have been extensively studied. However, there is minimal information on the role of the local microenvironment in the progression of the disease from diseased to healthy tissue. We designed 3D liver cultures with a mechanical gradient to gradually model this transition through spatial and temporal perspectives. These findings demonstrate the versatility and accuracy of these 3D hepatic models in the investigation of liver toxicity and fibrosis. / Ph. D.

<p>This dissertation details the creation, validation, and characterization of a porcine ex-vivo culture model to study subcuteneous tissue. The viability of the model was assessed over seven days of culture by digestion and the proliferation and death of cells was monitored by immunohistochmeical labelling and image analysis. The model was then used in a timecourse proteomics experiment to characterize the effect of culture on subcutaneous proteome. The model was then compared to a commercially available human ex-vivo model with respect to viability and changes to the subcutaneous proteome. </p>

<p dir="ltr">Tuberculosis (TB) remains a global public health crisis, causing over 10 million new infections and 1.3 million deaths in 2022 alone. TB is caused by <i>Mycobacterium tuberculosis </i>(<i>Mtb</i>), which initiates heterogeneous pathology in the lungs, including granulomas and cavities. Granulomas are organized structures of immune cells, traditionally thought to contain bacteria. Cavities are pathological spaces caused by the destruction of extracellular matrix (ECM), which can worsen disease outcomes and cause long-lasting pulmonary impairment.<i> In vitro </i>methods are commonly used to study host-pathogen interactions in <i>Mtb</i> infection, and recent developments have led to models that represent the TB granuloma environment more closely than traditional cell culture. These advances include the development of 3D models and the inclusion of physiological ECM components like collagen. Increasing complexity has been accomplished in a piece-wise manner – minimally necessary components are included to minimize cost while maintaining throughput and tractability. This creates a need for tools to analyze these systems and, more importantly, integrate the independent data created. We developed an agent-based model to characterize multiple <i>in vitro</i> models of TB and apply it to 1) separate the contributions of dimension and structure to bacterial control in granuloma-like spheroids and 2) explore how the interactions of collagen and matrix metalloproteinases (MMP) contribute to clinically relevant outputs such as bacterial load and ECM destruction. The model provides insights into the role of granuloma structure and the conflicting results of MMP inhibition, generating new hypotheses to be tested in tandem with <i>in vitro</i> models.</p>

<p dir="ltr">Pancreatic ductal adenocarcinoma (PDAC) remains one of the most deadliest cancer and despite advancements in cancer therapy, remain highly refractory to treatment, largely due to its desmoplastic tumor microenvironment (TME) characterized by complex interactions among cancer cells and stromal components. Particularly, the PDAC associated coagulation system due to leaky tumor vasculatures plays a pivotal role in reshaping the PDAC stroma and its pathogenesis. Understanding the intricate interplay between tumor cells, stromal cells, and the elevated coagulation pathway elements, including tissue factor, thrombin, and fibrin, is essential for developing effective therapeutic strategies. To address these challenges, this research proposes the engineering of a novel PDAC-associated coagulation system using a microfluidic technology, known as coagulation-on-tumor-microenvironment-on-chip (cT-MOC). The study aims to integrate key coagulation pathways in cT-MOC to investigate pivotal interactions in the PDAC stroma: <i>i)</i> thrombin-protease-activated receptors (PARs) mediated promotion of PDAC fibrosis via activation of cancer-fibroblast cross-talk; <i>ii)</i> in-depth analysis of transport and mechanical properties of collagen-fibrin microstructure; <i>iii)</i> inhibited drug delivery in reprogrammed PDAC stroma due to pronounced fibrin deposition on collagen. By leveraging innovative microfluidic technologies and comprehensive experimental approaches, the research endeavors to provide a novel platform that bridges traditional <i>in vitro</i> and <i>in vivo</i> models to overcome the challenges posed by the desmoplastic TME and enhance therapeutic strategies for treatment by targeting the coagulation at the PDAC TME.</p>

Text in Afrikaans / Summaries in English and Afrikaans / In die vinnig veranderende omgewing waarin universiteitbiblioteke funksioneer is daar besorgdheid oor die vermoe van universiteitbiblioteke om tred te hou met die verandering ten einde suksesvol te kan bly voortbestaan. Kreatiwiteit en innovasie speel 'n rol in die veranderingsproses. Organisasiekultuur het 'n invloed op die mate waarin kreatiwiteit en innovasie in 'n organisasie gestimuleer word. 'n Voorlopige model wat op die literatuur gebaseer is, het getoon dat strategie, organisasiestruktuur, ondersteuningsmeganismes, innovasiegedrag en kommunikasie die organisasiekultuurdeterminante is wat kreatiwiteit en innovasie in organisasies beinvloed. In die onderhawige empiriese studie is bestaande data, wat ingesamel is om die organisasiekultuurvan 'n universiteitbiblioteek te beskryf, gebruik om die voorlopige model te toets. 'n Faktorontleding het getoon dat strategie, doelgerigtheid, vertrouensverhouding, innovasiegedrag, werkomgewing, klientgeorienteerdheid en bestuursondersteuning 'n invloed het op die mate waarin kreatiwiteit en innovasie in die universiteitbiblioteek gestimuleer en bevorder sal word. / In the rapidly changing environment in which university libraries function there is concern about the ability of such libraries to keep pace with change in order to be able to survive. Creativity and innovation have a role to play in the change process. Organisational culture has an influence on the degree to which creativity and innovation are stimulated in an organisation. A preliminary model which is based on the literature, has shown that strategy, organisational structure, support mechanisms, innovation behaviour and communication are the organisational culture determinants that influence creativity and innovation in organisations. In the empirical study, existing data which were collected to describe the organisational culture of a university library, were used to test the preliminary model. A factor analysis showed that strategy, purposefulness, trust relationship, innovation behaviour, work environment, customer orientation and management support influence the degree to which creativity and innovation are stimulated and promoted in the university library. / Information Science / M.Inf.

Text in Afrikaans / Summaries in English and Afrikaans / In die vinnig veranderende omgewing waarin universiteitbiblioteke funksioneer is daar besorgdheid oor die vermoe van universiteitbiblioteke om tred te hou met die verandering ten einde suksesvol te kan bly voortbestaan. Kreatiwiteit en innovasie speel 'n rol in die veranderingsproses. Organisasiekultuur het 'n invloed op die mate waarin kreatiwiteit en innovasie in 'n organisasie gestimuleer word. 'n Voorlopige model wat op die literatuur gebaseer is, het getoon dat strategie, organisasiestruktuur, ondersteuningsmeganismes, innovasiegedrag en kommunikasie die organisasiekultuurdeterminante is wat kreatiwiteit en innovasie in organisasies beinvloed. In die onderhawige empiriese studie is bestaande data, wat ingesamel is om die organisasiekultuurvan 'n universiteitbiblioteek te beskryf, gebruik om die voorlopige model te toets. 'n Faktorontleding het getoon dat strategie, doelgerigtheid, vertrouensverhouding, innovasiegedrag, werkomgewing, klientgeorienteerdheid en bestuursondersteuning 'n invloed het op die mate waarin kreatiwiteit en innovasie in die universiteitbiblioteek gestimuleer en bevorder sal word. / In the rapidly changing environment in which university libraries function there is concern about the ability of such libraries to keep pace with change in order to be able to survive. Creativity and innovation have a role to play in the change process. Organisational culture has an influence on the degree to which creativity and innovation are stimulated in an organisation. A preliminary model which is based on the literature, has shown that strategy, organisational structure, support mechanisms, innovation behaviour and communication are the organisational culture determinants that influence creativity and innovation in organisations. In the empirical study, existing data which were collected to describe the organisational culture of a university library, were used to test the preliminary model. A factor analysis showed that strategy, purposefulness, trust relationship, innovation behaviour, work environment, customer orientation and management support influence the degree to which creativity and innovation are stimulated and promoted in the university library. / Information Science / M.Inf.

Dans la première partie du travail, nous avons étudié l’expression génique dans les cancers thyroïdiens survenus après l’explosion de la centrale nucléaire de Tchernobyl. L’incidence des cancers thyroïdiens papillaires a fortement augmenté après l’accident de Tchernobyl chez les enfants, offrant l’opportunité exceptionnelle d’étudier les caractéristiques moléculaires des cancers thyroïdiens radioinduits. Contrairement aux études précédentes qui comportaient toutes des facteurs confondants, nous avons pu investiguer l’expression des ARN messagers des tumeurs et de leurs tissus contra-latéraux normaux de patients exposés et de patients non exposés aux retombées radioactives, en utilisant une cohorte de patients appariés pour l’âge et l’ethnicité. L’irradiation d’une population conduit au développement de cancers dans une fraction de cette population. Les individus atteints peuvent l’avoir été de manière stochastique, ou à cause d’une prédisposition ou sensibilité particulière à l’irradiation. La comparaison des tumeurs exposées et non exposées permet d’étudier l’effet de l’irradiation, et celle des tissus normaux contralatéraux offre la possibilité d’étudier la susceptibilité aux radiations dont les implications sont nombreuses en médecine (radio-diagnostic, cancers secondaires) et en radioprotection. L’expression génomique complète a été analysée sur puces Affymetrix pour les tissus de 45 patients. Vingt-deux de ces patients ont été exposés aux retombées de Tchernobyl, vingt-trois autres, appariés selon l'âge et résidant dans les mêmes régions de l'Ukraine, n'ont pas été exposés à l’irradiation. Notre travail a mis en évidence l’existence d’une signature transcriptionnelle permettant de différencier les tissus normaux exposés des non exposés, les gènes qui composent cette signature ayant trait à la prolifération ;nos résultats suggèrent qu’un niveau plus élevé de prolifération dans les tissus normaux pourrait être associé aux cancers radioinduits, soit en tant que facteur prédisposant au cancer, soit en tant que conséquence de la radiation.<p><p>La deuxième partie du travail a été consacrée à la caractérisation in vitro de différentes lignées cellulaires humaines de cancers thyroïdiens. Ces lignées sont souvent employées comme modèles pour l’étude et le développement d’approches thérapeutiques pour ces cancers mais notre laboratoire a démontré que ces lignées s’étaient dédifférenciées au cours de leur propagation in vitro et que leurs profils transcriptionnels se rapprochaient essentiellement des tumeurs les plus dédifférenciées, les cancers anaplasiques. Nous avons tenté de ré-induire dans ces lignées l’expression des marqueurs de différenciation de la thyroïde au moyen d’agents épigénétiques, l’idée étant que ces gènes dont l’expression est caractéristique de la thyroïde ne s’expriment plus suite à l’action de mécanismes épigénétiques comme la méthylation au niveau de leurs promoteurs. Les cancers thyroïdiens dédifférenciés étant les plus agressifs et ayant perdu l’expression des facteurs de différenciation dont le transporteur sodium/iodure (NIS), ils sont inaccessibles au traitement par l’iode radioactif I131. La réexpression des marqueurs de différenciation thyroïdienne permettrait d’une part d’employer plus adéquatement les lignées comme modèle d’étude des cancers différenciés, et d’autre part d’envisager l’emploi de(s) substances(s) qui ont permis cette réexpression en tant que médicaments pour les cancers dédifférenciés. Nos travaux montrent que les traitements épigénétiques des lignées cancéreuses ne permettent pas une réinduction significative de la différenciation mais tendent à démontrer que l’inactivation épigénétique provoque dans ces lignées la perte de l’expression de gènes n’ayant aucun rôle utile pour la cellule au cours des milliers de réplications in vitro / In the first part of the work, we studied gene expression in thyroid cancers following the explosion of the Chernobyl nuclear power plant. The incidence of thyroid papillary cancers rose sharply after the Chernobyl accident in children, providing an exceptional opportunity to study the molecular characteristics of radiation-induced thyroid cancers. Unlike previous studies that included confounding factors, we were able to investigate the expression of messenger RNA from tumors and their normal contra-lateral tissue of patients exposed and not exposed to the fallout using a cohort of patients matched for age and ethnicity. The irradiation of a population leads to the development of cancer in a fraction of the population. Affected individuals may have been stochastically, or because of a particular predisposition or susceptibility to irradiation. Comparison of tumors exposed and unexposed allows to study the effect of irradiation, and the contra-lateral normal tissue offers the possibility to study the susceptibility to radiation whose implications are numerous: medical (radio - diagnosis, secondary cancers ) and radiation protection. The complete gene expression was analyzed on Affymetrix for tissues of 45 patients. Twenty- two of these patients were exposed to fallout from Chernobyl, twenty-three, matched for age and residing in the same regions of Ukraine have not been exposed to radiation. Our work has demonstrated the existence of a transcriptional signature allowing to differentiate exposed and unexposed normal tissues, and the genes that compose the signature are related to proliferation; our results suggest that a higher level of proliferation in normal tissues may be associated with radiation-induced cancers, either as a predisposing factor for cancer,or as a result of the radiation.<p><p>The second part was devoted to the in vitro characterization of different human cell lines of thyroid cancer. These lines are often used as models for the study and development of therapeutic approaches for these cancers, but our laboratory has demonstrated that these cell lines dedifferentiated during their in vitro propagation and their transcriptional profiles are essentially closer to the most dedifferentiated tumors, the anaplastic cancers. We tried to re- induce in these lines the expression of differentiation markers of thyroid using epigenetic agents, the idea being that these genes whose expression is characteristic of thyroid are no longer expressed due to epigenetic mechanisms such as methylation of their promoters. Dedifferentiated thyroid cancers are more aggressive and have lost the expression of differentiation factors including sodium/iodide transporter(NIS), they are inaccessible to treatment with radioactive iodine I131. Re-expression of thyroid differentiation markers could allow in one hand to use more adequately cell lines as models to study differentiated cancers, and secondly to consider the used substances that helped this re-expression as drugs for the dedifferentiated cancers. Our work shows that epigenetic treatments for cancer cell lines do not allow a significant re-induction of differentiation but tend to demonstrate that the epigenetic inactivation in these cell lines causes the loss of expression of genes that have no useful role in the cells over thousands of replication in vitro .<p><p> / Doctorat en Sciences biomédicales et pharmaceutiques / info:eu-repo/semantics/nonPublished