Les dernières avancées dans le domaine de l’imagerie par résonance magnétique permettent aujourd’hui de mieux comprendre l’anatomie et le fonctionnement du cerveau humain. L’IRM s’avère d’ailleurs aujourd’hui un outil clé pour la recherche de biomarqueurs d’imagerie dans la plupart des pathologies cérébrales. Nous nous sommes intéressés dans le cadre de cette thèse à l’étude de la connectivité anatomique des noyaux gris centraux, structures impliquées dans de nombreuses boucles cortico-sous-cortico-corticales, et dont l’atteinte est à l’origine de troubles moteurs à l’instar de la maladie de Huntington, du syndrome Gilles de la Tourette et de la maladie de Parkinson. Nous avons pour cela effectué plusieurs développements méthodologiques qui permettent de segmenter les noyaux gris centraux et d’inférer leur connectivité anatomique. Tout d’abord, nous avons développé une méthode de segmentation des noyaux gris centraux à partir de différents contrastes et capable de s’adapter à des cas pathologiques présentant une forte modification de ces structures. Ensuite, nous avons développé des méthodes robustes d’analyse et de sélection des fibres reliant les différentes structures cérébrales, obtenues à l’aide de méthodes de tractographie par IRM du processus de diffusion cérébrale. Ces nouvelles méthodes de sélection présentent l’avantage de tenir compte d’a priori anatomiques, et fournissent ainsi des résultats plus proches de la réalité que les résultats obtenus dans la littérature. Nous avons également développé une méthodologie permettant de construire des cartes de connectivité surfaciques afin de projeter les connexions des noyaux gris centraux sur la surface corticale et de comparer le profil de connectivité corticale des noyaux gris au sein d’une population et entre populations. Enfin, nous avons utilisé ces outils pour étudier les modifications putatives de la connectivité anatomique des noyaux gris centraux dans la maladie de Huntington et dans le syndrome Gilles de la Tourette. / The recent advances in magnetic resonance imaging helped understanding brain anatomy and function. Today, MR imaging is a key tool for inferring imaging-based biomarkers for most neuropathologies. In this work, we focused on the anatomical connectivity of the basal ganglia which are involved in several cortico-subcortical loops and which dysfunction is the origin of motor disorders like Huntington and Parkinson diseases and Gilles de la Tourette syndrome. We developed several tools allowing the segmentation of the basal ganglia and inferring their anatomical connectivity. First, we developed a method for deep nuclei segmentation using several contrasts and that was adapted for pathological cases presenting high modifications in the morphology of these structures. Second, we developed robust methods for the analysis and the selection of the fiber tracts linking different brain structures and obtained using dMRI and tractography methods. These novel tools have the advantage of taking into account anatomical prior knowledge. Therefore the obtained results are closer to the real anatomy than those obtained using the tools available in the literature. We also developed surface connectivity maps that project the cortical connections of the deep nuclei directly on the cortical surface and that allow the comparison of the connectivity profile of the deep nuclei between different subjects and different groups. Finally, we used these tools to study the putative modifications of the anatomical connectivity of the deep nuclei in the Huntington disease and Gilles de la Tourette syndrome.

O carcinoma basocelular (CBC) é uma neoplasia cutânea maligna de baixo potencial metastatizante, originada das células da camada basal da epiderme. Sua importância clínico-epidemiológica pode ser constatada pelo fato de constituir a neoplasia maligna mais comum na espécie humana, cujo principal fator etiológico é a exposição à radiação ultravioleta. Apesar da baixa incidência de metástases, a neoplasia pode adotar um comportamento localmente agressivo, com comprometimento de estruturas profundas e de forte apelo estético, como ocorre na região periocular. Uma das complicações advindas de sua infiltração neste sítio anatômico consiste na invasão de tecidos orbitários cujo tratamento é a exenteração, conduta mutiladora que consiste na retirada do globo ocular e das partes moles da órbita acometida. O objetivo deste estudo foi avaliar os casos de CBC com invasão orbitária que foram submetidos à exenteração no Hospital de Clínicas de Ribeirão Preto, no período de 1992 a 2012, para a possível identificação de fatores clínicos e morfológicos que possam predizer uma evolução desfavorável da neoplasia. Foi realizada uma coleta de dados clínicos, epidemiológicos e histopatológicos dos casos submetidos à exenteração a partir dos prontuários médicos dos pacientes. As lâminas referentes aos exames anátomo-patológicos foram revistas e foi realizado estudo imuno-histoquimico para os marcadores p53, bcl-2, actina de músculo liso e metaloproteinase-1. O grupo controle foi composto por pacientes com diagnóstico da neoplasia em topografia periocular, sem sinais de invasão orbitária. Para os casos com invasão orbitária o número de casos positivos marcados para p53 (0,21) e para actina de músculo liso (0,21) foi significantemente menor que o número de casos positivos para bcl-2 (0,63) e MMP-1 (0,58) (p= 0,0331). Entretanto, o número de casos positivos para bcl-2 (0,63) foi significantemente maior que o número de casos marcados por MMP-1 (0,58) (p=0,0126). Para os tumores sem invasão orbitária, o número de casos positivos para p53 (0,31) e actina (0,31) foi significantemente menor que o número de casos positivos para bcl-2 (0,63) eMMP-1 (0,50) (p=0,0273). Os resultados indicam que a invasão orbitaria por carcinoma basocelular palpebral ocorre com maior frequência no sexo masculino, em pacientes com longa história clínica de múltiplas lesões e submetidos a múltiplos procedimentos. Além disso, os marcadores estudados aparentemente não podem predizer um comportamento mais agressivo do tumor. / Basal cell carcinoma (BCC) is a malignant skin cancer of low metastasizing potential originated from the basal cells of the epidermis. Its clinical and epidemiological importance is evidenced by the fact that it is the most common malignancy in humans and it has as the main etiological factor the exposure to ultraviolet radiation. Despite the low incidence of metastases, the cancer can adopt a locally aggressive behavior with involvement of deep structures and it can have a strong aesthetic appeal, as in the periocular region. One of the complications arising from its infiltration in this anatomical site consists of orbital tissue invasion whose treatment is exenteration, a mutilating procedure consisting of the removal of the eyeball and the soft tissue of the affected orbit. The aim of this study was to evaluate the cases of BCC with orbital invasion that underwent exenteration at the Clinics Hospital of Ribeirão Preto Medical School, University of Sao Paulo, from 1992 through 2012, for possible identification of clinical and morphological factors that can predict an unfavorable evolution of the tumor. The clinical data were obtained from the patients\' charts and we have reviewed all the slides from exenteration specimens and performed immunohistochemical studies with p53, bcl-2, smooth muscle actin and metalloproteinase-1(MMP-1). The control group consisted of age-matched patients with eyelid basal cell carcinomas without orbital invasion. For cases with orbital invasion the number of positive cases labeled for p53 (0.21) and actin (0.21) was significantly lower than the number of positive cases for bcl-2 (0.63) and MMP -1 (0.58) (p = 0.0331). However, the number of positive cases for bcl-2 (0.63) was significantly greater than the proportion of positive cases for MMP-1 (0.58) (p = 0.0126). For cases without orbital invasion the number of positive cases for p53 (0.31) and actin (0.31) was significantly lower than the number of positive cases for bcl-2 (0.63) and MMP-1 (0.50) (p = 0.0273), even though the number of positive cases marked for MMP-1 (0.50) was not significantly different from number of positive cases for bcl-2 (0.63) (p = 0.059). The results indicate that orbital invasion of basal cell carcinoma of the eyelid was more frequent in male sex and that the patients have usually a long history of multiple lesions and were submitted to several procedures. In addition, our results suggest these markers can not predict an aggressive behavior for basal cell carcinomas of the periocular region.

The heterogeneity of breast cancer (disease stage and phenotype) makes it challenging to differentiate between each subtype; luminal A, luminal B, HER2, basal-like and claudin-low, on the basis of a single gene or protein. Therefore, a collection of markers is required that can serve as a signature for diagnosing different types of breast cancer. New developments in proteomics have provided the opportunity to look at phenotype-specific breast cancer cell lines and stage-specific liquid biopsies (nipple aspirate fluid [NAF], plasma samples) to identify disease and phenotype specific signature. An 8-plex iTRAQ quantification strategy was employed to compare proteomic profiles of a range of breast cancer and ‘normal-like’ cell lines with primary breast epithelial cells. From this, 2467 proteins were identified on Orbitrap Fusion and Ultraflex II, of which 1430 were common. Matched pairs of NAF samples from four patients with different stages of breast cancer, were analysed by SCX-LC-MS and a total of 1990 unique gene products were identified. More than double the number of proteins previously published data, were detected in NAF, including 300 not detected in plasma. The NAF from the diseased patients have 138 potential phenotype biomarkers that were significantly changed compared to the healthy volunteer (7 for luminal A, 9 for luminal B, 11 for HER2, 14 for basal-like and 52 for claudin-low type). The average coefficient of variation for triplicate analyses by multiple reaction monitoring mass spectrometry (MRM-MS), was 9% in cell lines, 17 % in tissue biopsies, 22% in serum samples and 24% in NAF samples. Overall, the results provide a strong paradigm to develop a clinical assay based on proteomic changes in NAF samples for the early detection of breast cancer supplementary to established mammography programmes.

To increase our understanding of how ice sheets and glaciers interact with the climate system, numerical models have become an indispensable tool. However, the complexity of these systems and the natural limitation in computational power is reflected in the simplifications of the represented processes and the spatial and temporal resolution of the models. Whether the effect of these limitations is acceptable or not, can be assessed by theoretical considerations and by validating the output of the models against real world data. Equally important is to verify if the numerical implementation and computational method accurately represent the mathematical description of the processes intended to be simulated. This thesis concerns a set of numerical models used in the field of glaciology, how these are applied and how they relate to other study areas in the same field. The dynamical flow of glaciers, which can be described by a set of non-linear partial differential equations called the Full Stokes equations, is simulated using the finite element method. To reduce the computational cost of the method significantly, it is common to lower the order of the used elements. This results in a loss of stability of the method, but can be remedied by the use of stabilization methods. By numerically studying different stabilization methods and evaluating their suitability, this work contributes to constraining the values of stabilization parameters to be used in ice sheet simulations. Erroneous choices of parameters can lead to oscillations of surface velocities, which affects the long term behavior of the free-surface ice and as a result can have a negative impact on the accuracy of the simulated mass balance of ice sheets. The amount of basal sliding is an important component that affects the overall dynamics of the ice. A part of this thesis considers different implementations of the basal impenetrability condition that accompanies basal sliding, and shows that methods used in literature can lead to a difference in velocity of 1% to 5% between the considered methods. The subglacial hydrological system directly influences the glacier's ability to slide and therefore affects the velocity distribution of the ice. The topology and dominant mode of the hydrological system on the ice sheet scale is, however, ill constrained. A third contribution of this thesis is, using the theory of R-channels to implement a simple numerical model of subglacial water flow, to show the sensitivity of subglacial channels to transient processes and that this limits their possible extent. This insight adds to a cross-disciplinary discussion between the different sub-fields of theoretical, field and paleo-glaciology regarding the characteristics of ice sheet subglacial hydrological systems. In the study, we conclude by emphasizing areas of importance where the sub-fields have yet to unify: the spatial extent of channelized subglacial drainage, to what degree specific processes are connected to geomorphic activity and the differences in spatial and temporal scales. As a whole, the thesis emphasizes the importance of verification of numerical models but also acknowledges the natural limitations of these to represent complex systems. Focusing on keeping numerical ice sheet and glacier models as transparent as possible will benefit end users and facilitate accurate interpretations of the numerical output so it confidently can be used for scientific purposes. / <p>At the time of the doctoral defense, the following papers were unpublished and had a status as follows: Paper 3: Manuscript. Paper 4: Manuscript.</p> / Greenland Analogue Project

O carcinoma basocelular (CBC) é uma neoplasia cutânea maligna de baixo potencial metastatizante, originada das células da camada basal da epiderme. Sua importância clínico-epidemiológica pode ser constatada pelo fato de constituir a neoplasia maligna mais comum na espécie humana, cujo principal fator etiológico é a exposição à radiação ultravioleta. Apesar da baixa incidência de metástases, a neoplasia pode adotar um comportamento localmente agressivo, com comprometimento de estruturas profundas e de forte apelo estético, como ocorre na região periocular. Uma das complicações advindas de sua infiltração neste sítio anatômico consiste na invasão de tecidos orbitários cujo tratamento é a exenteração, conduta mutiladora que consiste na retirada do globo ocular e das partes moles da órbita acometida. O objetivo deste estudo foi avaliar os casos de CBC com invasão orbitária que foram submetidos à exenteração no Hospital de Clínicas de Ribeirão Preto, no período de 1992 a 2012, para a possível identificação de fatores clínicos e morfológicos que possam predizer uma evolução desfavorável da neoplasia. Foi realizada uma coleta de dados clínicos, epidemiológicos e histopatológicos dos casos submetidos à exenteração a partir dos prontuários médicos dos pacientes. As lâminas referentes aos exames anátomo-patológicos foram revistas e foi realizado estudo imuno-histoquimico para os marcadores p53, bcl-2, actina de músculo liso e metaloproteinase-1. O grupo controle foi composto por pacientes com diagnóstico da neoplasia em topografia periocular, sem sinais de invasão orbitária. Para os casos com invasão orbitária o número de casos positivos marcados para p53 (0,21) e para actina de músculo liso (0,21) foi significantemente menor que o número de casos positivos para bcl-2 (0,63) e MMP-1 (0,58) (p= 0,0331). Entretanto, o número de casos positivos para bcl-2 (0,63) foi significantemente maior que o número de casos marcados por MMP-1 (0,58) (p=0,0126). Para os tumores sem invasão orbitária, o número de casos positivos para p53 (0,31) e actina (0,31) foi significantemente menor que o número de casos positivos para bcl-2 (0,63) eMMP-1 (0,50) (p=0,0273). Os resultados indicam que a invasão orbitaria por carcinoma basocelular palpebral ocorre com maior frequência no sexo masculino, em pacientes com longa história clínica de múltiplas lesões e submetidos a múltiplos procedimentos. Além disso, os marcadores estudados aparentemente não podem predizer um comportamento mais agressivo do tumor. / Basal cell carcinoma (BCC) is a malignant skin cancer of low metastasizing potential originated from the basal cells of the epidermis. Its clinical and epidemiological importance is evidenced by the fact that it is the most common malignancy in humans and it has as the main etiological factor the exposure to ultraviolet radiation. Despite the low incidence of metastases, the cancer can adopt a locally aggressive behavior with involvement of deep structures and it can have a strong aesthetic appeal, as in the periocular region. One of the complications arising from its infiltration in this anatomical site consists of orbital tissue invasion whose treatment is exenteration, a mutilating procedure consisting of the removal of the eyeball and the soft tissue of the affected orbit. The aim of this study was to evaluate the cases of BCC with orbital invasion that underwent exenteration at the Clinics Hospital of Ribeirão Preto Medical School, University of Sao Paulo, from 1992 through 2012, for possible identification of clinical and morphological factors that can predict an unfavorable evolution of the tumor. The clinical data were obtained from the patients\' charts and we have reviewed all the slides from exenteration specimens and performed immunohistochemical studies with p53, bcl-2, smooth muscle actin and metalloproteinase-1(MMP-1). The control group consisted of age-matched patients with eyelid basal cell carcinomas without orbital invasion. For cases with orbital invasion the number of positive cases labeled for p53 (0.21) and actin (0.21) was significantly lower than the number of positive cases for bcl-2 (0.63) and MMP -1 (0.58) (p = 0.0331). However, the number of positive cases for bcl-2 (0.63) was significantly greater than the proportion of positive cases for MMP-1 (0.58) (p = 0.0126). For cases without orbital invasion the number of positive cases for p53 (0.31) and actin (0.31) was significantly lower than the number of positive cases for bcl-2 (0.63) and MMP-1 (0.50) (p = 0.0273), even though the number of positive cases marked for MMP-1 (0.50) was not significantly different from number of positive cases for bcl-2 (0.63) (p = 0.059). The results indicate that orbital invasion of basal cell carcinoma of the eyelid was more frequent in male sex and that the patients have usually a long history of multiple lesions and were submitted to several procedures. In addition, our results suggest these markers can not predict an aggressive behavior for basal cell carcinomas of the periocular region.

Dans ce travail de thèse, nous avons modélisé le rôle de la dopamine dans l'apprentissage et dans les processus de sélection de l'action en lien avec les ganglions de la base. L'activité des neurones dopaminergiques présente de nombreuses similarités avec l'erreur de prédiction de la récompense utilisée par les algorithmes d'apprentissage par renforcement. Ainsi, ces neurones sont supposés guider le processus de sélection de l'action.Dans une première partie, nous avons analysé l'information encodée par les neurones dopaminergiques dans une tâche à choix multiples en la comparant à différentes informations utilisées par les modèles d'apprentissage par renforcement. Nos résultats suggèrent que l'information encodée par les neurones dopaminergiques enregistrer dans la tâche n'est que partiellement compatible avec une erreur de prédiction et semble en partie dissociée du comportement.Dans une deuxième partie, nous avons simulé l'effet de la dopamine sur un modèle des ganglions de la base prenant en compte des connections existant chez le primate, souvent négligées dans la littérature. La plupart des modèles actuels font en effet l'hypothèse d'une séparation stricte de deux chemins dans les ganglions de la base : le chemin direct lié à la récompense et le chemin indirect lié à la punition. Cependant des études anatomiques remettent en question cette dissociation, en particulier chez le primate. Nous proposons ainsi d'étudier comment différents niveaux de dopamine, dans le contexte de la maladie de Parkinson, affectent l'apprentissage et la sélection de l'action dans ce modèle / In this thesis work, we modelled the role of dopamine in learning and in the processes of action selection through its interaction with the basal ganglia. During the 90’s, the work of Schultz and colleagues has led to major progress in understanding the neural mechanisms underlying the influence of feedback on learning. The activity of dopaminergic neurons exhibited properties of the reward prediction error signal used in so-called Temporal Difference (TD) machine learning algorithms. Thus, DA has been thought to be the neural signal that help us to adapt our behavior. In the first part of my PhD, we analyze the information encoded by dopaminergic neurons recorded during a multi-choice task. In this purpose, we modeled the task and simulated different TD learning algorithms to quantitatively compare their ability to reproduce dopamine neurons activity. Our results show that the information carried out by dopamine neurons is only partly consistent with a reward prediction error and seems to be dissociated from behavioral adaptation.In the second part of my PhD, we study the effect of different levels of dopamine in a biologically plausible model of primates basal ganglia that considers existing connections often neglected in the literature. Indeed, most of current models of basal ganglia assume the existence of two segregated pathway: the direct pathway associated with reward and the indirect pathway associated with punishment. However, anatomical studies in primates revealed that these two pathways are not dissociated. We study the ability of such a model to reproduce beta oscillations observed in Parkinsonian and the differences in reward and punishment sensitivity, with high or low-level of dopamine.

abstract: No studies have evaluated the impact of tracking resting energy expenditure (REE) and modifiable health behaviors on gestational weight gain (GWG). In this controlled trial, pregnant women aged >18 years (X=29.8±4.9 years) with a gestational age (GA) <17 weeks were randomized to Breezing™ (N=16) or control (N=12) for 13 weeks. The Breezing™ group used a real-time metabolism tracker to obtain REE. Anthropometrics, diet, and sleep data were collected every 2 weeks. Rate of GWG was calculated as weight gain divided by total duration. Early (GA weeks 14-21), late (GA weeks 21-28), and overall (GA week 14-28) changes in macronutrients, sleep, and GWG were calculated. Mediation models were constructed using SPSS PROCESS macro using a bootstrap estimation approach with 10,000 samples. The majority of women were non-Hispanic Caucasian (78.6%). A total of 35.7% (n=10), 35.7% (n=10), and 28.6% (n=8) were normal weight, overweight, and obese, respectively, with 83.3% (n=10) and 87.5% (n=14) of the Control and Breezing™ groups gaining above IOM GWG recommendations. At baseline, macronutrient consumption did not differ. Overall (Breezing™ vs. Control; M diff=-349.08±150.77, 95% CI: -660.26 to -37.90, p=0.029) and late (M diff=-379.90±143.89, 95% CI:-676.87 to -82.93, p=0.014) changes in energy consumption significantly differed between the groups. Overall (M diff=-22.45±11.03, 95% CI: -45.20 to 0.31, p=0.053), late (M diff=-23.16±11.23, 95% CI: -46.33 to 0.01, p=0.05), and early (M diff=20.3±10.19, 95% CI: -0.74 to 41.34, p=0.058) changes in protein differed by group. Nocturnal total sleep time differed by study group (Breezing vs. Control; M diff=-32.75, 95% CI: -68.34 to 2.84, p=0.069). There was a 11.5% increase in total REE throughout the study. Early changes in REE (72±211 kcals) were relatively small while late changes (128±294 kcals) nearly doubled. Interestingly, early changes in REE demonstrated a moderate, positive correlation with rates of GWG later in pregnancy (r=0.528, p=0.052), suggesting that REE assessment early in pregnancy may help predict changes in GWG. Changes in macronutrients did not mediate the relationship between the intervention and GWG, nor did sleep mediate relationships between dietary intake and GWG. Future research evaluating REE and dietary composition throughout pregnancy may provide insight for appropriate GWG recommendations. / Dissertation/Thesis / Doctoral Dissertation Nutrition 2019

Le cil primaire, véritable organite sensoriel cellulaire est présent à la surface de la plupart des cellules de mammifères en quiescence. Truffé de récepteurs à sa membrane, le cil capte les signaux mécaniques et chimiques, jouant ainsi un rôle clé dans de nombreux processus développementaux et physiologiques. Un défaut de structure et/ou de fonction du cil est à l'origine de cancérogénèse et de pathologies humaines appelées ciliopathies.Le cil primaire est ancré à la membrane plasmique grâce au corps basal, structure dérivée du centriole père et connectée aux trois réseaux du cytosquelette. La formation du cil primaire nécessite une succession d'étapes cytoplasmiques hautement régulées. Elle débute par la maturation du centriole père en corps basal. Cette étape nécessite le recrutement de protéines spécifiques au centriole père permettant l'association avec une vésicule ciliaire à l'extrémité distale du centriole père. Ce complexe migre et vient s'ancrer à la membrane apicale déclenchant la nucléation de microtubules pour la formation de la partie externe du cil, ou axonème. En parallèle, la ciliogénèse nécessite un remodelage important du cytosquelette d'actine ainsi qu'un trafic de vésicules orienté vers la base du cil. Si la plupart des étapes sont bien caractérisées, celle concernant la migration du corps basal ainsi que la contribution du cytosquelette reste mal comprise.Afin de mieux appréhender les mécanismes impliqués dans la migration du corps basal lors de la ciliogénèse, nous avons développé un système expérimental basé sur l'utilisation de micro-patrons adhésifs recouverts de fibronectine. Cette technologie comporte de nombreux avantages. Elle permet le contrôle de l'étalement de la cellule inhérent à la surface imposée par la matrice extracellulaire régulant ainsi l'organisation du cytosquelette ainsi que le positionnement des organelles subcellulaires. Par ailleurs, le volume cellulaire induit par le confinement spatial facilite l'observation de la position du centrosome en z au cours du temps, indispensable pour l'étude de chaque étape de la ciliogénèse cytoplasmique.Dans un premier temps, nous avons démontré que la forme et l'architecture du cytosquelette d'actine qui en dépend sont des régulateurs majeurs du processus ciliogénique. Les cellules confinées spatialement et sevrées 24h sur des petits disques développent un réseau branché au niveau de leur surface apicale nécessaire à la croissance du cil primaire. A l'inverse, les cellules étalées sur des grands disques sont beaucoup plus contractées. Elles développent d'importantes fibres de stress sur leur surface ventrale. Le centrosome reste sous le noyau et le niveau de contraction empêche l'assemblage du cil. Le niveau de contractilité module donc la formation du réseau d'actine apicale qui contrôle en retour le mouvement du corps basal et l'élongation du cil.Dans un deuxième temps, nous avons étudié la dynamique du cytosquelette d'actine et de microtubules durant l'étape de migration du corps basal c'est à dire juste après la privation de sérum. Nos résultats indiquent que la migration nécessite une augmentation transitoire de la stabilité des microtubules concomitante avec une augmentation de la contractilité des filaments d'actine. Un crible basé sur l'ARN interférence nous a permis d'identifier des gènes impliqués dans le processus de migration dont CEP164, contribuant à l'ancrage du centriole père à la vésicule ciliaire. Les cellules déficientes en CEP164 montrent un défaut de réorganisation du cytosquelette expliquant l'inhibition du transport du corps basal vers la membrane apicale.L'ensemble des résultats nous permet d'avancer dans la compréhension des conditions requises pour le mouvement du corps basal vers la membrane apicale. Celui-ci nécessite à la fois un remodelage significatif du cytosquelette en constant dialogue et en interaction avec certains composants ciliaires nécessaires à la formation du cil primaire. / The primary cilium is a sensory organelle present on the surface of most quiescent cells. It possesses numerous receptors on its surface and is responsible for transducing biochemical and mechanical signals to the interior of the cell and playsimportant roles during development and in homeostasis. Defects in primary cilium assembly are the underlying cause of a group of pleiotropic diseases referred to as ciliopathies.The primary cilium is anchored to the plasma membrane through the basal body which is derived from the mother centriole and is connected to three networks of the cytoskeleton. Primary cilium formation is a highly regulated and multi-step process that begins with the maturation of the centriole mother into basal body in the cytoplasm of the cell. One of the first steps of primary cilium assembly is the recruitment of specific proteins to the mother centriole to initiate the formation of a ciliary vesicle at the distal end of the mother centriole. Once formed, the mother centriole migrates to and is anchored to the apical membrane, triggering the elongation of microtubules from the distal end of the mother centriole to form the outer part of primary cilium, or axoneme. In order for this to occur, significant remodeling of the actin cytoskeleton and directe-trafficking of vesicles to the base of the cilium is required. While much progress has been made in characterizing the initial steps of primary ciliogenesis, how the basal body migrates to the plasma membrane is not fully understood.To gain a better understanding of the mechanisms involved in the migration of basal body during ciliogenesis, we developed an experimental system based on the use of adhesive micro-patterns coated with fibronectin. This technology has many advantages. It enables the control of the cell spreading which is imposed by the size of the adhesive area and, in turn, the regulation of cytoskeletal organization and the positioning of subcellular organelles. Furthermore, this technique enables the cell volume induced by the spatial confinement, to be controlled, facilitating the observation and measurement of the centrosome's position in z throughout the primary ciliogenesis process.First, we demonstrated that the shape and architecture of the actin cytoskeleton are major regulators of primary ciliogenesis. Cells spatially confined and starved for 24h on small discoidal micropattern develop an apical web like actin network necessary for the primary cilium growth. In contrast, cells plated on large discs are much more contracted and they develop significant stress fibers on their ventral surface. In this situation, the centrosome remains below the nucleus and the level of contraction prevents the assembly of a primary cilium. The level of contractility therefore modulates the formation of apical actin network that in turn controls the movement of the basal body and the cilium elongation.Secondly, we studied actin cytoskeleton and microtubule reorganization during the basal body migration step that occured just after serum starvation. Our results indicate that migration requires a transient increase in the stability of microtubules, concomitant with an increase in contractility of actin filaments. By RNA interference screening, we have identified genes involved in the migration process including CEP164, which has previously been shown to participate in the anchoring of the ciliary vesicle to the mother centriole. CEP164-deficient cells were found to have defects in cytoskeletal reorganization thereby explaining why basal body transport to the plasma membrane was blocked in these cells.Altogether, these results enable our understanding of how basal body movement to the apical membrane is driven. This requires both significant remodeling and crosstalk between the actin and microtubule cytoskeleton and interaction with ciliary components necessary for the formation of a primary cilium.

Abstract not available

PhD / When modeling a system as complex as the brain, considerable simplifications are inevitable. The nature of these simplifications depends on the available experimental evidence, and the desired form of model predictions. A focus on the former often inspires models of networks of individual neurons, since properties of single cells are more easily measured than those of entire populations. However, if the goal is to describe the processes responsible for the electroencephalogram (EEG), such models can become unmanageable due to the large numbers of neurons involved. Mean-field models in which assemblies of neurons are represented by their average properties allow activity underlying the EEG to be captured in a tractable manner. The starting point of the results presented here is a recent physiologically-based mean-field model of the corticothalamic system, which includes populations of excitatory and inhibitory cortical neurons, and an excitatory population representing the thalamic relay nuclei, reciprocally connected with the cortex and the inhibitory thalamic reticular nucleus. The average firing rates of these populations depend nonlinearly on their membrane potentials, which are determined by afferent inputs after axonal propagation and dendritic and synaptic delays. It has been found that neuronal activity spreads in an approximately wavelike fashion across the cortex, which is modeled as a two-dimensional surface. On the basis of the literature, the EEG signal is assumed to be roughly proportional to the activity of cortical excitatory neurons, allowing physiological parameters to be extracted by inverse modeling of empirical EEG spectra. One objective of the present work is to characterize the statistical distributions of fitted model parameters in the healthy population. Variability of model parameters within and between individuals is assessed over time scales of minutes to more than a year, and compared with the variability of classical quantitative EEG (qEEG) parameters. These parameters are generally not normally distributed, and transformations toward the normal distribution are often used to facilitate statistical analysis. However, no single optimal transformation exists to render data distributions approximately normal. A uniformly applicable solution that not only yields data following the normal distribution as closely as possible, but also increases test-retest reliability, is described in Chapter 2. Specialized versions of this transformation have been known for some time in the statistical literature, but it has not previously found its way to the empirical sciences. Chapter 3 contains the study of intra-individual and inter-individual variability in model parameters, also providing a comparison of test-retest reliability with that of commonly used EEG spectral measures such as band powers and the frequency of the alpha peak. It is found that the combined model parameters provide a reliable characterization of an individual's EEG spectrum, where some parameters are more informative than others. Classical quantitative EEG measures are found to be somewhat more reproducible than model parameters. However, the latter have the advantage of providing direct connections with the underlying physiology. In addition, model parameters are complementary to classical measures in that they capture more information about spectral structure. Another conclusion from this work was that a few minutes of alert eyes-closed EEG already contain most of the individual variability likely to occur in this state on the scale of years. In Chapter 4, age trends in model parameters are investigated for a large sample of healthy subjects aged 6-86 years. Sex differences in parameter distributions and trends are considered in three age ranges, and related to the relevant literature. We also look at changes in inter-individual variance across age, and find that subjects are in many respects maximally different around adolescence. This study forms the basis for prospective comparisons with age trends in evoked response potentials (ERPs) and alpha peak morphology, besides providing a standard for the assessment of clinical data. It is the first study to report physiologically-based parameters for such a large sample of EEG data. The second main thrust of this work is toward incorporating the thalamocortical system and the basal ganglia in a unified framework. The basal ganglia are a group of gray matter structures reciprocally connected with the thalamus and cortex, both significantly influencing, and influenced by, their activity. Abnormalities in the basal ganglia are associated with various disorders, including schizophrenia, Huntington's disease, and Parkinson's disease. A model of the basal ganglia-thalamocortical system is presented in Chapter 5, and used to investigate changes in average firing rates often measured in parkinsonian patients and animal models of Parkinson's disease. Modeling results support the hypothesis that two pathways through the basal ganglia (the so-called direct and indirect pathways) are differentially affected by the dopamine depletion that is the hallmark of Parkinson's disease. However, alterations in other components of the system are also suggested by matching model predictions to experimental data. The dynamics of the model are explored in detail in Chapter 6. Electrophysiological aspects of Parkinson's disease include frequency reduction of the alpha peak, increased relative power at lower frequencies, and abnormal synchronized fluctuations in firing rates. It is shown that the same parameter variations that reproduce realistic changes in mean firing rates can also account for EEG frequency reduction by increasing the strength of the indirect pathway, which exerts an inhibitory effect on the cortex. Furthermore, even more strongly connected subcircuits in the indirect pathway can sustain limit cycle oscillations around 5 Hz, in accord with oscillations at this frequency often observed in tremulous patients. Additionally, oscillations around 20 Hz that are normally present in corticothalamic circuits can spread to the basal ganglia when both corticothalamic and indirect circuits have large gains. The model also accounts for changes in the responsiveness of the components of the basal ganglia-thalamocortical system, and increased synchronization upon dopamine depletion, which plausibly reflect the loss of specificity of neuronal signaling pathways in the parkinsonian basal ganglia. Thus, a parsimonious explanation is provided for many electrophysiological correlates of Parkinson's disease using a single set of parameter changes with respect to the healthy state. Overall, we conclude that mean-field models of brain electrophysiology possess a versatility that allows them to be usefully applied in a variety of scenarios. Such models allow information about underlying physiology to be extracted from the experimental EEG, complementing traditional measures that may be more statistically robust but do not provide a direct link with physiology. Furthermore, there is ample opportunity for future developments, extending the basic model to encompass different neuronal systems, connections, and mechanisms. The basal ganglia are an important addition, not only leading to unified explanations for many hitherto disparate phenomena, but also contributing to the validation of this form of modeling.