The niche in which stem cells reside is involved in the regulation of stem cell fate, such as differentiation and self-renewal, by providing ECM proteins, growth factors, cell-cell interactions and balancing chemical factors such as the level of oxygen and pH. ECM proteins are involved in maintaining stemness of stem cells and in regulating differentiation via integrin-mediated signalling. Following the interaction of ECM proteins with integrins, integrins cluster and interact with large complexes of signalling proteins. These adhesion complexes have been reported to contain at least 150 proteins, which have been termed the adhesome. Adhesion complex proteins interact with the actin cytoskeleton and signalling pathways to play an essential role in stem cell fate. The hypothesis in this study was that the interaction of stem cells via integrin receptors with ECM proteins, lead to changes in the abundance or composition of adhesion complexes, which potentially activates signalling pathways involved in either maintaining or differentiation of stem cells. In this study, three principal advances have been made:First, a method was developed using ligand-coated magnetic beads for the isolation of integrin-associated complexes from pluripotent human embryonic stem cells (hESCs). The isolated integrin-associated complexes from hESCs were analysed by proteomic methods, which led to the detection of key integrin-associated adhesion proteins such as talin, vinculin, alpha actinin 4, filamin B, filamin C and zyxin. Second, isolation of integrin-associated complexes from multipotent MSCs was performed using a method based on “de-roofing” MSCs from FN or PDL coated plastic dishes, leading to the detection of key adhesome components by mass spectrometry. Ontological analysis of proteins enriched on FN demonstrated the enrichment of adhesion complexes. Third, following the induction of multipotent MSCs into early adipogenic MSCs and the isolation of integrin-associated complexes from early adipogenic MSCs and undifferentiated MSCs, core adhesome components were identified in induced and non-induced MSCs, with induction hypothesised to cause putative changes in the FN-induced adhesome network. Also, the level of adhesion complexes increased significantly in MSCs on FN upon induction into adipocytes compared to non-induced MSCs on FN and versus the control as shown by bioinformatics analysis. This data led to the hypothesis that upon induction of MSCs into adipocytes the abundance of proteins in integrin-associated complexes or the number of adhesion complexes increases.In conclusion, in this study two biochemical affinity methods were developed for the isolation of integrin-associated complexes from hESCs and MSCs, using ligand coated magnetic beads and ligand-coated plastic dishes. The development of these methods led to the isolation of adhesion-related proteins from pluripotent hESCs and differentiated MSCs and the detection of a pattern of changes in the abundance of adhesion related proteins in differentiated MSCs incubated on FN. The development of methods for the isolation of adhesion related complexes from stem cells can lead to a better understanding of the role of adhesion in differentiation and maintenance of pluripotency in stem cells. A better understanding of adhesion could have future implications in obtaining pure populations of undifferentiated stem cells for cell-based therapies and differentiated cells for the use in tissue engineering and repair.

ABCA1 is a key plasma membrane protein required for the efflux of cellular cholesterol to extracellular acceptors, particularly to apoA-I. This process is essential to maintain cholesterol homeostasis in the body. The detailed molecular mechanisms, however, are still insufficiently understood. Also, the molecular identity of ABCA1, i.e. channel, pump or flippase, remains unknown. In this study we analyzed the extracellular ATP levels in the medium of ABCA1-expressing BHK cells and RAW macrophages and compared them to the medium of relevant non-expressing cells. We found that the extracellular ATP concentrations are significantly elevated when cells express ABCA1. Importantly, a dysfunctional ABCA1 mutant (A937V), when expressed similarly as WT-ABCA1, is unable to raise extracellular ATP concentration. This suggests a causal relationship between functional ABCA1 and elevated extracellular ATP. To explore the physiological role of elevated extracellular ATP, we analyzed ABCA1-mediated cholesterol efflux under the conditions where extracellular ATP levels were modulated. We found that increasing extracellular ATP within the physiological range, i.e. < μM, promotes cholesterol efflux to apoA-I. On the other hand, removing extracellular ATP, either by adding apyrase to the medium or by expressing a plasma membrane bound ecto-nucleotidase CD39, abolishes cholesterol efflux to apoA-I. Based on these results we conclude that, through direct or indirect mechanisms, ABCA1 functions to raise ATP levels in the medium. This elevated extracellular ATP is required for ABCA1-mediated cholesterol efflux to apoA-I.

Water and wastewater treatment solutions incorporating biofilm systems are becoming increasingly popular due to more stringent regulations pertaining to drinking water and wastewater effluent discharge in Canada and in other parts of the world. As a major component of biofilm, extracellular polymeric substances (EPS) have been considered as an important factor affecting the physical and chemical properties of biofilm. Further, the selected method of EPS extraction and the methods of detecting the composition of the EPS have shown to affect the results of EPS measurements. In this research, protocols for EPS extraction and EPS composition analysis were investigated and optimized for nitrifying moving bed biofilm reactor (MBBR) biofilm. In addition, the confocal Raman microscopy (CRM) spectra of EPS in nitrifying MBBR biofilm and the protein, polysaccharide and extracellular DNA (eDNA) percent concentrations of the EPS were investigated at various operating temperatures. Further, the CRM spectra and the protein, polysaccharide and eDNA percent concentration of EPS in nitrifying MBBR biofilm along with the biofilm morphology and thickness and the viability of the embedded cells were investigated at various hydraulic retention times (HRTs). The EPS was characterized at various temperatures and HRTs in order to investigate potential correlation between the EPS components of the nitrifying biofilm and the ammonia removal kinetics. The biofilm morphology and thickness along with the bacterial viability of the biofilm were also investigated at various HRTs. Biofilm morphology images and thickness measurements were acquired using a variable pressure scanning electron microscope (VPSEM). The percentages of viable embedded cells in the biofilm were quantified using live/dead staining in combination with confocal laser microscopy (CLSM) imaging. The research demonstrates that an increase in protein content and subsequently a decrease in polysaccharides and eDNA contents in the EPS of nitrifying MBBR biofilm were observed at the lowest operational HRT and the highest temperature in this work. In particular, the EPS protein to polysaccharide (PN/PS) ratio of nitrifying MBBR systems was shown to significantly decrease below a value of 3 when the system was underloaded (observed at the highest operational temperature in this study) or hydraulically overloaded (observed at the lowest HRT in this study). As such, data obtained at lower operational temperatures, with the system no longer underloaded, and at longer HRTs, with the system no longer hydraulically overloaded, all demonstrate an EPS PN/PS ratio of approximately 3. Correlations were observed between the chemically measured EPS PN/PS ratios and the measured Raman spectra intensity ratios; supporting the concept of higher PN/PS ratios of EPS in more optimal nitrifying MBBR operations. Further, the ammonia removal kinetics and EPS response at HRT values of 0.75 and 1.0 h indicate that nitrifying MBBR systems may be optimized to operate at HRTs as low as 0.75 to 1.0 hour as opposed to conventional HRTs of 2.0 to 6.0 h.

The motivation for this PhD thesis was to understand the molecular basis of how cells regulate the formation of an organised and mechanically strong extracellular matrix (ECM). In tendon this process begins during embryogenesis with the appearance of bundles of narrow-diameter (~30 nm) collagen fibrils that are parallel to the tendon long axis. At the onset of collagen fibrillogenesis, the cells elongate, the fibrils are constrained within plasma membrane channels with their ends contained in tension-sensitive actin-stabilised plasma membrane protrusions. The mechanism by which actin is reorganised during cell elongation and the formation of tension-sensitive plasma membrane protrusions is poorly understood. The small GTPase RhoA is the major regulator of actin reorganisation into stress fibres, which have been implicated in mechanotransduction, ECM assembly and remodelling. The hypothesis tested by this PhD thesis was that the organisation and tensioning of extracellular collagen fibrils is generated on a blueprint of tensioned actin filaments within the cell. Rho activity is regulated specifically by Rho GTPase activating proteins (RhoGAPs). By comparing the global gene expression of tendon tissues at different developmental stages, Arhgap28, a novel RhoGAP, which is expressed during tendon development but not during postnatal maturation, was identified.Arhgap28 belongs to a large family of RhoGAPs containing the closely related members, Arhgap6 and Arhgap18, which have previously been shown to regulate RhoA and stress fibre formation. Arhgap28 expression was upregulated in embryonic fibroblasts cultured in a 3D, tensioned embryonic tendon-like construct compared to monolayer culture. Arhgap28 expression was further enhanced during the development of mechanical strength and stiffness of the tendon constructs, but downregulated when the tension in tendon constructs was released. Overexpression of a C-terminal V5-tagged Arhgap28 protein caused a reduction in RhoA activation and disruption of stress fibre assembly. Modulation of Rho signalling using lysophosphatidic acid and Y27632 showed that collagen remodelling by cells in collagen gels and tendon constructs is regulated by RhoA signalling. A tissue-wide qPCR analysis identified Arhgap28 in several tissues including tendon, bone, and skin. An Arhgap28 reporter mouse (Arhgap28gt) and an Arhgap28 knockout mouse (Arhgap28del) were also studied to investigate the role of Arhgap28 in tissue organisation in vivo. Arhgap28gt mice showed Arhgap28 expression in bones at E18.5. Homozygous Arhgap28del mice were viable, appeared normal but expressed a truncated Arhgap28 transcript, which if translated, would produce a protein lacking the RhoGAP domain. Therefore, it was hypothesised that knockout mice were normal due to compensation from another RhoGAP. Overexpression of Arhgap6 in Arhgap28-null bone tissues was confirmed. Upregulation in RhoA expression was also detected, further suggesting that Arhgap28 regulates RhoA. Interestingly, a microarray comparison of bone tissues from wild type and Arhgap28-null mice showed that genes linked to bone dysplasia are downregulated in Arhgap28-null bone. Together, these results suggest that formation of a strong and organised collagen ECM is mediated by RhoA-generated cellular tension and that Arhgap28 and Arhgap6 might be co-regulators of this process.

Orientador: Carlos Francisco Sampaio Bonafé / Dissertação (mestrado) - Universidade Estadual de Campinas, Instituto de Biologia / Made available in DSpace on 2018-08-18T11:09:06Z (GMT). No. of bitstreams: 1 Norberto_DouglasRicardo_M.pdf: 4245356 bytes, checksum: 8a2d8041749dec81554527bd8729d8ea (MD5) Previous issue date: 2007 / Resumo: A hemoglobina extracelular de Glossoscolex paulistus (eritrocruorina) foi investigada com respeito ao efeito da temperatura na dissociação induzida por alta pressão hidrostática. O aumento de temperatura e pressão induziu o processo de dissociação, como observado pela significativa diminuição da intensidade de espalhamento de luz. Tais informações foram confirmadas através de HPLC em gel filtração e microscopia eletrônica. Ocorreu uma redução dos valores de energia livre de Gibbs de dissociação indicando um processo predominantemente endotérmico. A variação de entalpia (?H) observada no processo foi de 27,82 MJ/mol de hemoglobina (Hb) e a de entropia (T?S), à temperatura de 293 K, de 23,91 MJ/mol de Hb. Foi encontrada uma redução da mudança de volume de dissociação (?V) de -78,20 para -10,44 mL/mol de subunidade de Hb. Em condições atmosféricas e temperatura de 293 K, a variação da energia interna de dissociação (?U) foi de 27,82 MJ/mol de Hb e da energia livre de Helmholtz, (?A), de 3,92 MJ/mol de Hb. Os resultados da dissociação oligomérica em alta pressão no intervalo de temperatura investigado mostraram a ocorrência de etapas distintas de mudança de estabilidade conformacional. Complementarmente, foi realizado um estudo das interações intersubunidades e da área de exposiçao da proteína ao solvente no processo de dissociação, permitindo a obtenção de importantes dados quantitativos no processo / Abstract: Glossoscolex paulistus extracelluar hemoglobin (erithrocruorin) was studied with respect of thermal effect on the dissociation induced by high hydrostatic pressure. The increase of temperature and pressure led to dissociation process, as observed by the significant decrease in the intensity of light scattering values. Such information was confirmed by HPLC gel filtration and electron microscopy. A predominantly endothermic process was observed with the reduction in the Gibbs free energy of dissociation. The enthalpy change (?H) obtained was of 27,82 MJ/mol of hemoglobin (Hb) and the entropy change (T?S), at a temperature of 273 K, 23,91 MJ/mol of Hb. The estimated volume change of dissociation (?V) decreased from -78,20 to -10,44 mL/mol of subunit of Hb. The change of internal energy of dissociation (?U), at atmospheric conditions and temperature of 293K, was of 27,82 MJ/ mol of Hb and the change of free energy of Helmholtz (?A) was of 3,92 MJ/mol of Hb. The results also indicated that the dissociation of oligomeric Hb at high pressure and at investigated temperature range occurs in distinct steps of conformational stability and allowed to obtain significant quantitative data in the process. In addition, it was studied the subunity interactions and related exposed area of the protein solvent dissociation, attempting to obtain an quantitative description of the process / Mestrado / Bioquimica / Mestre em Biologia Funcional e Molecular

Aneurismas e dissecções da aorta ascendente são caracterizados por degradação das fibras elásticas e de colágeno e diminuição de células musculares lisas, predominantemente em áreas mucóides, as quais são relacionadas ao acúmulo de glicosaminoglicanos ou proteoglicanos. Tendo em vistas tais alterações, estudamos a topologia das metaloproteases nestas doenças. Cortes de 5?m de aortas, fixadas em fomol e embebidas em parafina, foram submetidos a reações imuno-histoquímicas para MMP-3 (estromelisina), MMP-7 (matrilisina) e plasminogênio/plasmina na camada média. Em paralelo, cortes de aortas foram submetidos a coloração pela hematoxilina e eosina e azul de Alcian (para material mucóide). Aortas de 8 pacientes com aneurisma de aorta torácica e 10 com dissecções agudas foram analisadas. Adicionalmente, 9 aortas normais foram estudadas como controle. Em todos os casos, MMP-3 e, mais expressivamente, MMP-7 apresentaram marcação dentro dos acúmulos mucóides. Em contrapartida, a marcação para plasmina/plasminogênio situou-se ao redor deles. Fora dessas áreas, a MMP-3 mostrou distribuição intra e extracelular, a MMP-7 apresentou marcação intra e extracelular predominante na segunda metade da túnica média, e plasmina/plasminogênio teve co-localização com células musculares lisas. Considerando que matrilisina e estromelisina atuam sobre os proteoglicanos e sobre outros componentes da matriz extracelular, estas enzimas poderiam estar envolvidas diretamente na gênese dos aneurismas e dissecções da aorta ascendente, com possível modulação por plasminogênio/plasmina / In dissections and non-inflammatory aneurysms of the ascending aorta there is an increase in mucoid (proteoglycan) deposition. We analyzed by immunoperoxidase the distribution of stromelysin (MMP-7), matrilysin (MMP-3) and plasminogen/plasmin, enzymes that act on proteoglycans, in sections of human aortas with these diseases and in controls. In cases with any of these diseases MMP-7 and MMP-3 were accumulated in the areas of mucoid degeneration, and plasmin around them. Such enzymes could thus be involved in these diseases. We also evaluated by morphometry the amount of collagen in the two halves of the aortic media.

Cortical injury, such as that following stroke, is one of the leading causes of long-term disabilities world-wide. While some neuroprotective agents given within hours of stroke can reduce damage, there are currently no neurorestorative therapeutics that can enhance long-term recovery. To address this, we tested Mesenchymal Stem Cell (MSC) derived Extracellular Vesicles (EVs) as a treatment for cortical injury in rhesus monkeys (Macaca mulatta). Monkeys treated with EVs 24 hours after injury and again at 14 days after injury recovered more completely and more rapidly than monkeys given a vehicle control. However, the cellular changes associated with enhanced recovery remained unknown. In this dissertation, it was hypothesized that EVs modulated cells within the brain to enhance recovery after cortical injury. To explore this hypothesis, three specific aims were tested. Aim 1: To determine the effects of EVs on microglial reactivity. Since EVs in this study were derived from MSCs, it was hypothesized that they would have an immunomodulatory effect. Using immunohistochemistry, image analyses, and 3-D reconstruction, we showed that microglia shifted from reactive, damaging phenotypes towards homeostatic, surveilling functions in EV-treated monkeys. These effects correlated with reduced time to recovery, suggesting that reduced microglial reactivity enhanced recovery. Aim 2: To assess the effects of EVs on myelination. Because MSCs have regenerative effects, it was hypothesized that these MSC-derived EVs would improve neurorestoration. Using immunohistochemistry, qRT-PCR, Spectral Confocal Reflectance microscopy, and ELISA, we assessed myelination after cortical injury with and without EV treatment. EVs limited oligodendrocyte damage and increased densities of mature oligodendrocytes to enhance myelin maintenance. These effects correlated with improved recovery, suggesting the importance of myelination in recovery after cortical injury. Aim 3: To assess the neuroprotective role of EVs on infarct volumes. While it was hypothesized that EVs would reduce the densities of inflammatory cells (astrocytes, macrophages/microglia, T-cells), hemosiderin accumulation, and infarct volume, we found that EVs did not alter these endpoints. Collectively, our results suggest that EVs modulated microglia and oligodendrocytes to promote neurorestoration. Overall, these findings demonstrate the therapeutic potential of EVs for neurorestoration after cortical injury.

L’interaction épithélium/mésenchyme est cruciale pour de nombreux processus physiopathologiques. Lors de ma thèse, je me suis intéressée aux signaux mésenchymateux régulant les cellules épithéliales en utilisant comme modèle la peau, qui est composée de 2 compartiments : l’épiderme (épithélium) et le derme (mésenchyme). Les intégrines sont impliquées ces interactions. CD98hc est une protéine transmembranaire à double fonction qui chaperonne des transporteurs d’acides aminés et régule la signalisation des ß intégrines. Elle est exprimée dans les cellules prolifératives telle les cellules épithéliales. Dans la peau, CD98hc est exprimée l’épiderme mais également dans les fibroblastes, cellules post-mitotiques. Mon hypothèse a été que CD98hc participe aux régulations des interactions derme/épiderme. Grâce à un modèle de KO conditionnel de CD98hc dans les fibroblastes dermiques, j’ai mis en évidence que CD98hc permet le maintient des propriétés mécaniques et biologiques du derme, et, de ce fait, régule l’épiderme en conditions d’homéostasie, de perturbation de la barrière et lors de la formation de cancer. De plus, le rôle de CD98hc dans cette interaction apparait comme étant lié à l’âge. En conclusion, mes travaux de thèse montrent le rôle central de l’expression dermique de CD98hc dans le maintien de l’homéostasie cutanée au cours du vieillissement ainsi que lors de la tumorigenèse. / The epithelial/mesenchymal interaction is crucial for many physiopathological processes. During my PhD, I focused on mesenchymal signals that regulate epithelial cells behavior using the skin as model. The skin is composed of 2 main compartments: the epidermis (epithelium) and the dermis (mesenchyme). While this crosstalk involves integrins, its regulations are poorly understood. The transmembrane protein CD98hc interacts with amino acid transporter and regulates integrin signaling. CD98hc which is expressed at the cell membrane of proliferative cells, specifically epithelial cells, is required for tissue homeostasis. We found that besides its expression in keratinocytes, CD98hc is also expressed in post-mitotic dermal fibroblast. Hence, I hypothesized that CD98hc is involved in epidermis/dermis crosstalk. Using a conditional KO mouse model that harbor a CD98hc deletion in dermal fibroblast, I have shown that dermal CD98hc is required to maintain mechanical and biochemical properties of the dermis. Moreover, I have shown that those CD98hc-dependent dermal properties are implicated in the regulation of the epidermal cell behavior during homeostasis, cutaneous barrier disruption and tumorigenesis. Moreover, the role of CD98hc in those processes seems to be age-related. To conclude, during my PhD, I have revealed a major role of CD98hc in the maintenance of skin homeostasis during aging and tumorigenesis.

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