Metal ions released from implantable biomaterials have been associated with adverse biological reactions that can limit implant longevity. Previous studies have shown that, in macrophages, Co2+, Cr3+, and Ni2+ can activate the NLR family pyrin domain-containing protein 3 (NLPR3) inflammasome, which is responsible for interleukin(IL)-1β production through caspase-1. Furthermore, these ions are known to induce oxidative stress, and inflammasome priming is known to involve nuclear factor kappa-light-chain-enhancer of activated B cells (NF-κB) signaling. However, the mechanisms of inflammasome activation by metal ions remain largely unknown. The objectives of this thesis were to determine if, in macrophages: 1. IL-1β release induced by metal ions is caspase-1-dependent; 2. caspase-1 activation and IL-1β release induced by metal ions are oxidative stress-dependent; and 3. IL-1β release induced by metal ions is NF-κB signaling pathway-dependent. Lipopolysaccharide (LPS)-primed murine bone-marrow-derived macrophages were exposed to Co2+, Cr3+, or Ni2+, with or without an inhibitor of caspase-1, oxidative stress, or NF-κB. Culture supernatants were analyzed for active caspase-1 (immunoblotting) and/or IL-1β (ELISA). Overall, results showed that while both Cr3+ and Ni2+ may be inducing inflammasome activation, Cr3+ is likely a more potent activator, acting through oxidative stress and the NF-κB signaling pathway. Further elucidation of the activation mechanisms may facilitate the development of therapeutic approaches to modulate the inflammatory response to metal ions, and thereby increase implant longevity.

Interferons are known cytokines that display antiviral, anti-proliferative and immuno-modulatory functions in the host. Interferon-gamma (Ifnγ) is the only type II family interferon that binds to the heterodimeric receptor consisting of two subunits, IfnγR1 and IfnγR2. This specific interaction between Ifnγ and its receptor triggers the activation of Janus Kinase (Jak) – Signal Transducer and Activator of Transcription (Stat) pathway. This triggers a cascade of events leading to modulation of a wide variety of genes resulting in a plethora of responses including antimicrobial activities, induction of Major Histocompatibility Complex encoded molecules etc. The impact of Ifnγ in regulating host defense is observed in patients who lack functional IFNγ or its receptor as they succumb to less virulent strains of intracellular bacteria such as Mycobacterium and Salmonella. Also, mice lacking important downstream signaling components such as Stat1 and Interferon Regulated Factor 1 (Irf1) are known to be highly susceptible to a variety of bacterial and viral infections. Consequently, studies on uncharacterized signaling and regulatory molecules downstream to Ifnγ are of great interest. The modulatory functions of Ifnγ have been attributed to its ability to regulate the expression of a vast number of genes in a Stat1 and Irf1 dependent manner. Also, gene regulation in response to Ifnγ in a target cell such as mouse hepatoma cell line, H6, can be categorized broadly into two subsets: Reactive Oxygen Species (ROS) - Reactive Nitrogen Intermediates (RNI) dependent (e.g. Nos2, Catalase, Id2 etc.) as well as ROS – RNI independent (e.g. Tap1, Lmp2 etc.). However, the effect of Ifnγ induced ROS and RNI in the regulation of the expression of genes at the level of transcriptome and how these could impact cellular and host responses are not well characterized. To investigate these questions, we standardized an in vitro Ifnγ responsive primary cell culture system using mouse adherent peritoneal macrophages (PMs). It needs to be highlighted that this study has, primarily, utilized unstimulated resident PMs. The adherent cells from the peritoneal cavity were positive for macrophage markers such as F4/80 and CD11b, but negative for granulocyte marker Gr1. Also, PMs were resistant to Ifnγ induced cell death, unlike cell lines such as the mouse fibroblast cell line L929, for the time points studied. There are three distinct parts to this study involving the system of PMs: I. To understand the contribution of Nitric Oxide (NO) in regulating the expression of novel Ifnγ responsive genes, PMs from C57BL/6 mice and mice lacking nitric oxide synthase 2 (Nos2-/-), the enzyme isoform responsible for the generation of NO in PMs, were stimulated with Ifnγ for 8 h and microarray analysis was performed. Detailed analysis led to identification of several annotated genes that were uniquely regulated in C57BL/6 and Nos2-/- PMs. Further analysis using the Kyoto Encyclopedia of Genes and Genomes (KEGG) database identified several differentially regulated pathways. Interestingly, a large number of metabolism related pathways, Butirosin and neomycin, Galactose, Phenylalanine and glyoxylate and dicarboxylate, were specifically up-regulated in the C57BL/6 PMs treated with Ifnγ. Similarly, other metabolism related pathways were differentially regulated by Ifnγ in PMs from C57BL/6 and Nos2-/- mice. One of the pathways that was up regulated in a Nos2 dependent manner in the C57BL/6 PMs upon Ifnγ treatment was that of circadian rhythm, which consisted of genes Per1, Bhlhb2 and Bhlhb3. All three are known circadian rhythm regulators, with Bhlhb2 and Bhlhb3 being transcriptional repressors that bind to E-box consensus sequence (CANNTG) as heterodimers, using the basic helix-loop-helix (bHLH) domains, along with other transcriptional regulators. Both Bhlhb2 and Bhlhb3 were up regulated at RNA and protein levels in a kinetic manner upon Ifnγ treatment in L929 cells. Studies with inhibitors to ROS and RNI revealed that up regulation of Bhlhb2 and Bhlhb3 was RNI, but not ROS, dependent in response to Ifnγ. Interestingly, the RNI inhibitor, NG-Methyl-L-Arginine (LNMA) rescued Ifnγ induced ROS. On the other hand, ROS inhibitors, e.g. Apocyanin and polyethylene glycol Catalase (PEG-Catalase), did not affect the nitrite amounts in the supernatant. These experiments suggested that RNI was upstream to ROS in L929 cells and both contributed to Ifnγ induced cell death. The knockdown of Bhlhb3 using specific siRNAs in the untreated L929 cells increased Bhlhb2 amounts, but not vice versa. This observation is consistent with the fact that Bhlhb3 is a known repressor of Bhlhb2. However, this repression of Bhlhb2 by Bhlhb3 was not detected upon Ifnγ treatment in L929 cells possibly because of heterodimerization of Bhlhb3 with other Ifnγ induced transcriptional modulators. Finally, knockdown of either of the proteins did not affect induced nitrite but decreased ROS amounts resulting in significant rescue of Ifnγ induced cell death of L929 cells. Thus, Bhlhb2 and Bhlhb3 are novel Ifnγ induced proteins that are NO dependent and contribute to Ifnγ induced cell death. Ifnγ and Nos2 are known to elicit antibacterial defense in the host. Interestingly, recent studies have implicated circadian rhythm to regulate bacterial infection in mice. Therefore, regulation of both Bhlhb2 and Bhlhb3 upon Ifnγ treatment and during Salmonella enterica Serovar Typhimurium (S. typhimurium) infection in the bone marrow derived macrophages (BMDMs) was performed. Both Bhlhb2 and Bhlhb3 were induced in a Nos2 dependent manner upon Ifnγ addition in BMDMs. Similar to L929 cells, Bhlhb3 repressed Bhlhb2 in the untreated BMDMs. Also, infection of BMDMs with S. typhimurium increased the protein amounts of Bhlhb2, while repressing Bhlhb3. Importantly, knockdown of Bhlhb2 resulted in higher colony forming units (CFU), whereas knockdown of Bhlhb3 reduced CFU in BMDMs 18 h post infection with S. typhimurium. Thus, Bhlhb2 induced whereas Bhlhb3 repressed antibacterial defense in BMDMs. The exact mechanism downstream to these two proteins and their inter-relationship in regulating S. typhimurium infection is of considerable interest and will be studied in future. II. Macrophages are known to produce a large number of different cytokines and chemokines upon activation. To identify novel cytokines and chemokines that may be differentially regulated in response to Ifnγ, a protein array was performed using the supernatants of C57BL/6 PMs treated with and without Ifnγ. Chemokine Ccl3 was found to be repressed by Ifnγ in the supernatant of PMs. Further analysis using Enzyme Linked Immuno-Sorbent Assay (ELISA) revealed that both Ccl3 and Ccl4, highly homologous proteins that chemo-attract almost all types of leukocytes, were repressed upon Ifnγ treatment. This response was ligand and cell specific as Lip polysaccharide (LPS) stimulation of PMs and Ifnγ stimulation of thioglycollate elicited PMs did not result in repression of Ccl3 and Ccl4. Also, studies with fludarabine, an inhibitor to Stat1, revealed that the repression of Ccl3 and Ccl4 as well as induction of Cxcl10 in response to Ifnγ was Stat1 dependent. Importantly, the use of LNMA as well as PMs from Nos2-/- mice established the role of Nos2 in the repression of Ccl3 and Ccl4, but not Cxcl10 induction, in response to Ifnγ. Furthermore, activation of p38 Mapk, but not Jnk, was downstream to Nos2 activation and contributed functionally to the repression of Ccl3 and Ccl4 in response to Ifnγ. Finally, the transcriptional repressor, Activating Transcription Factor 3 (Atf3), was induced in a Stat1-Nos2-p38 Mapk dependent manner and knockdown of Atf3 using siRNAs established the functional role of the same in the repression of Ccl3 and Ccl4 in response to Ifnγ. Further, to understand the regulation of Ccl3 and Ccl4, their modulation upon S. typhimuirum infection of BMDMs was performed. Apart from regulating the CFU in BMDMs, Ifnγ and Nos2 functionally repressed Ccl3 and Ccl4 upon S. typhimurium infection. Oral infection of mice with S. typhimurium was performed and mice lacking Ifnγ and Nos2 were found to have greater CFU in their organs as well as more leukocytes in the infected liver sections in comparison to the infected C57BL/6 mice. Importanly, absence of Ifnγ as well as Nos2 increased the amounts of Ccl3 and Ccl4 in the sera upon S. typhimurium infection in comparison to the C57BL/6 infected mice. Overall, this part of the study identified Ifnγ and Nos2 to repress chemokines Ccl3 and Ccl4 in macrophages and in mice upon S. typhimurium infection. III. While working on the above mentioned studies, it was noticed that addition of Ifnγ to PMs induced in a dose and time dependent manner aggregation of cells. Experiments with LPS, TG PECs and BMDMs established that Ifnγ induced aggregation of PMs was ligand and cell type specific. A panel of cell surface integrins and selectins were screened for regulation upon Ifnγ addition, namely Icam1, Lfa1, CD11b, P-selectin and E-selectin. Most of the cell surface integrins were repressed by Ifnγ in a kinetic manner. Interestingly, CD11b as well as E-Selectin co-localized to the sites of interactions between the PMs upon Ifnγ treatment. Studies with Reopro, a purified F(ab’)2 to glycoprotein GPIIb that is also known to functionally block CD11b, revealed the functional contribution of CD11b during Ifn induced aggregation of PMs. Further, studies with specific inhibitors identified RNI, but not ROS, to contribute to Ifnγ induced PM aggregation. Also, lack of Nos2 in PMs upon Ifnγ treatment resulted in minimal aggregation together with morphological changes, e.g. flattening of cells. Since differences in the morphology of PMs was observed in the absence of Nos2 upon Ifnγ treatment, the regulation and roles of cytoskeleton proteins, Actin and tubulin, during Ifnγ induced aggregation of PMs was studied. Upon Ifnγ stimuli, actin and tubulin get stabilized. On the other hand, the absence of Nos2 leads to depolymerization of actin, while tubulin failed to stabilize to the membrane, in response to Ifnγ. Further, addition of actin and tubulin depolymerizing agents, Cytochalasin D and Colcemid respectively, decreased Ifnγ induced aggregation of PMs. Live cell imaging studies revealed that PMs needed actin, but not tubulin or CD11b, for mobility. Upon Ifnγ treatment, PMs from C57BL/6 mice exhibited reduced mobility and aggregated with each other. The Nos2-/- PMs exhibited lower mobility compared to C57BL/6 PMs and, upon Ifnγ treatment, underwent morphological changes with time, e.g. flattening. On the other hand, Nos2 is important for endogenous mobility and maintaining the cellular morphology in response to Ifnγ. To understand the physiological relevance of our observations, oral infection of C57BL/6 and Nos2-/- mice with S. typhimurium was performed. Four days post infection, no significant differences in the number of peritoneal cells were found. Importantly, PMs from infected Nos2-/- mice had higher CFU in comparison to C57BL/6 mice. However, the amounts of cytokines such as Ifnγ, Tnfα, Il6 and Il1β in the peritoneal lavage were not significantly different between the two infected strains. Interestingly, PMs isolated from infected Nos2-/- mice displayed distinct morphology, e.g. flattening. In comparison, infected C57BL/6 PMs aggregated when cultured for 24 h in vitro. In the future, it will be interesting to address the functional roles of aggregates of macrophages during physiologically relevant responses such as combating intracellular bacterial infection. This part of the study adds a new dimension to the ability of Ifnγ in the regulation of macrophage-macrophage interactions and their roles during intracellular bacterial infections. Overall, the present study has elucidated hitherto uncharacterized roles of Nos2 and mechanisms involved in regulation of novel functional responses of PMs to Ifnγ and during S. typhimurium infection.

Les monocytes classiques (cMo) sont des phagocytes mononucléés circulant dans le sang et capables de migrer vers les tissus enflammés pour s’y différencier en monocytes inflammatoires, cellules dendritiques dérivées de monocytes (MoDC), macrophages (MoM) ou cellules myéloïdes suppressives. Selon le contexte physiopathologique, les cellules dérivées de cMo peuvent être bénéfiques ou néfastes. Dans l’infection par le cytomégalovirus murin (MCMV) leur rôle est controversé. Les divergences apparentes dans la littérature pourraient s’expliquer par l’utilisation de souches distinctes de souris ou de virus, l’étude d’organes différents, et la confusion existante sur l’identité et la plasticité de différents sous-types de cellules dérivées de cMo. Par des analyses transcriptionnelles, morphologiques et fonctionnelles, mon travail de thèse montre que, dans la rate de souris infectées par MCMV, les cMo se différencient simultanément en monocytes inflammatoires, MoDC et MoM. Cette différenciation est abrogée lorsque les cMo sont incapables de répondre aux interférons de type I (IFN-I), massivement produits dans les infections virales, qui boostent l’immunité intrinsèque antivirale et promeuvent l’activation des cellules immunitaires innées et adaptatives. La déplétion des cMo compromet le contrôle de l’infection et les réponses des cellules Natural Killer et des lymphocytes T CD8+. Mon travail montre que, dans les souris infectées par MCMV, les cMo se différencient, de manière dépendante de l’IFN-I, en trois sous-types cellulaires distincts qui contribuent à la fois au contrôle de la réplication virale et à la promotion de réponses immunitaires innées et adaptatives protectrices. / Classical monocytes (cMo) are mononuclear phagocytes mainly localized in the blood at steady state. Upon inflammation cMo migrate into inflamed tissues where they can differentiate in inflammatory monocytes, monocyte-derived dendritic cells (MoDC), monocyte-derived macrophages (MoM) or myeloid derived suppressor cells (MDSC). Depending on the physiopathological context, cMo-derived cells can be beneficial or detrimental. There are major discrepancies between published reports on the role of cMo during MCMV infection. This may be due to the use of distinct strains of mice or of virus, to the study of different organs, or to the confusion existing in the field regarding the identity and the plasticity of the different types of cMo-derived cells. During my PhD, by combining gene expression profiling, morphological, phenotypical and functional studies, I have shown that splenic cMo in MCMV-infected mice encompass cells that had simultaneously differentiated in vivo into either inflammatory monocytes, MoDC or MoM. This cMo differentiation is abrogated in the absence of responsiveness to type I interferons (IFN-I), which are highly produced during viral infections and boosting cell-intrinsic anti-viral immunity as well as promoting the activation of innate and adaptive immune responses. cMo depletion compromises the control of MCMV replication and the antiviral responses of Natural Killer cells and CD8+ T lymphocytes. My PhD work demonstrates that, in MCMV-infected mice, cMo differentiate, via an IFN-I-dependent pathway, into three distinct cell subtypes that are involved both in the control of MCMV replication and in the induction of protective innate and adaptive immunity.

Le virus de la rage est un pathogène neurotrope qui, actuellement, fait toujours plus de 55000 morts par an et dont la pathogenèse présente toujours de nombreuses zones d’ombre. Le mécanisme par lequel le virus échappe au système immunitaire de même que l’implication d’autres types cellulaires, particulièrement au niveau de la phase de latence, n’est pas encore connu. Il en est de même pour le mécanisme par lequel le virus induit un dysfonctionnement neuronal. Dans le cadre de ce projet de thèse, nous avons donc décidé d’étudier l’implication du macrophage et des caspases dans l’infection induite par le virus rabique. <p>Nos résultats ont permis de démontrer que, malgré la faiblesse de la production virale in vitro, les macrophages infectés par une souche virulente de virus rabique étaient capables de transmettre l’infection et d’induire une encéphalite mortelle chez la souris. Ces résultats suggèrent que les macrophages sont susceptibles d’être des hôtes potentiels du virus.<p>Dans un deuxième temps, nous avons également mis en évidence des différences de caractéristiques d’infection entre les souches virulentes et atténuées du virus rabique. Nous avons en effet démontré qu’en comparaison avec la souche vaccinale ERA, l’infection par la souche virulente CVS-11 était moins productive dans les cellules d’origine périphérique, tels que les cellules musculaires ou les macrophages. En revanche, la souche virulente se réplique mieux dans le cerveau et dans les cellules d’origine neuronale. Chez le macrophage, nous avons pu observer que l’infection par la souche atténuée ERA induisait une plus forte mortalité que celle générée par la souche CVS-11. Nos analyses ont mis en évidence que cette mortalité était de type apoptotique et qu’elle impliquait l’activation des caspases-1, -3, -7, -8, -9, du facteur Bid et de l’IL-1β. Des analyses réalisées sur des macrophages knock-out pour les caspase-1, -3 et -7 ont démontré d’une part l’importance de la caspase-3 dans la mortalité cellulaire et d’autre part qu’une déficience en caspase-7 pouvait être associée à une charge virale plus élevée, particulièrement en cas d’infection avec la souche virulente. In vivo, nous avons observé que l’inoculation de la souche CVS-11 chez des souris déficientes en caspase-3 retardait l’apparition des symptômes et de la mortalité sans pour autant modifier l’issue inéluctable de la maladie. Chez les souris caspase-1 knock-out, l’inoculation d’une souche atténuée entrainait une morbidité plus élevée que celle observée chez les souris WT.<p>Ce travail de thèse nous a donc permis d’améliorer notre compréhension des mécanismes impliqués dans la pathogénèse du virus rabique et dans la réponse de l’hôte à l’infection et a souligné le rôle potentiel du macrophage comme vecteur de dissémination virale/<p><p>Rabies virus is a neurotropic pathogen which currently causes more than 55000 deaths a year and our knowledge on its pathogenesis still contains many gaps. The mechanism by which the virus escapes the immune system as well as the involvement of different cell types, particularly in the asymptomatic phase, is still unknown. The situation is similar for the mechanism by which the virus induces neuronal dysfunction. In this work, we decided to study the involvement of caspases and the macrophage in infection induced by rabies virus.<p>Our results demonstrated that, despite a weak virus production in vitro, macrophages infected with a virulent strain of rabies virus were able to transmit infection and induce fatal encephalitis in mice. These results suggest that macrophages may be potential cellular hosts of rabies virus.<p>In a second step, we demonstrated differences in infection characteristics between virulent and attenuated rabies virus strains. Indeed, we showed that, in comparison with the ERA vaccine strain, infection with the virulent strain CVS-11 strain was less productive in cells of peripheral origin, such as muscle cells or macrophages. In contrast, the virulent strain replicated best in the brain and in neuronal cells. In the macrophage, we observed that infection with the attenuated strain ERA strain induced a higher mortality than that induced by the CVS-11 strain. Our analyzes showed that mortality was apoptotic and involved the activation of caspases-1, -3, -7, -8, -9, IL-1β and cleavage of Bid. Analyzes performed on macrophages deficient for caspase-1, -3 or -7 indicated the importance of caspase-3 in cell death and demonstrated that a deficiency in caspase- 7 could be associated with a higher viral loadd, particularly in case of infection with the virulent strain. In vivo, we observed that the inoculation of the CVS-11 strain in mice deficient in caspase-3 delayed the onset of symptoms and mortality without changing the fatal outcome of the disease. Inoculation of caspase-1 knockout mice with the attenuated strain resulted in a higher morbidity than that observed in wild type mice.<p>This work allowed us to improve our understanding of the mechanisms involved in the pathogenesis of rabies virus and in the host response and highlighted a potential role for the macrophage as a vector of virus dissemination.<p><p> / Doctorat en Sciences / info:eu-repo/semantics/nonPublished

Le muscle squelettique a la capacité de se régénérer suite à une lésion grâce aux cellules satellites qui sont les cellules souches du muscle. Après dommage musculaire, les cellules satellites s’activent, prolifèrent, se différencient et fusionnent afin de reformer le muscle lésé. Cependant les cellules myogéniques ne sont pas les seules cellules impliquées dans la régénération musculaire. Des études précédentes réalisées au laboratoire ont montré chez la souris que les macrophages sont des cellules essentielles à la régénération musculaire. En effet, peu de temps après un dommage musculaire, les monocytes infiltrent le tissu lésé et se différencient en macrophages pro-inflammatoires Ly6Cpos (M1). Ces macrophages stimulent la prolifération des myoblastes et inhibent leur fusion. Puis les macrophages pro-inflammatoires changent de phénotype et deviennent des macrophages anti-inflammatoires Ly6Cneg (M2) qui stimulent la différenciation des myoblastes et les protègent de l’apoptose. Ainsi, en fonction de leur phénotype, les macrophages exercent des rôles trophiques séquentiels sur les myoblastes tout au long du processus de régénération musculaire. Dans la première partie de notre étude, nous montrons in vitro que les macrophages humains soutiennent les différentes étapes de la myogenèse. Les macrophages M1 sont fortement attirés par les myoblastes. De plus ils stimulent la prolifération des myoblastes et inhibent leur fusion. Les macrophages M2 attirent les myoblastes et stimulent leur différenciation permettant ainsi la formation de larges myotubes. En utilisant des anticorps bloquants spécifiques, nous avons identifié plusieurs molécules sécrétées par les macrophages régulant la myogenèse chez l’homme. Nos analyses in vivo chez l'homme confirment nos résultats obtenus in vitro. En effet, les macrophages M1 sont préférentiellement associés aux aires de régénération contenant des myoblastes non différenciés alors que les macrophages M2 sont associés aux aires de régénération contenant des myoblastes en différenciation. Dans un contexte de myopathie dégénérative, nous avons montré que les macrophages adoptent des phénotypes et des fonctions totalement différents des macrophages présents au cours de la régénération musculaire. Nous avons observé chez la souris et chez l’homme, que les macrophages exprimant des marqueurs M1 sont associés à la fibrose et qu’un traitement anti-inflammatoire réduit leur nombre dans le muscle dystrophique murin. Par isolement spécifique et cocultures ex vivo, nous avons montré qu'au cours de la régénération musculaire, les macrophages Ly6Cneg stimulent la production de collagène par les fibroblastes. A l'inverse au cours des myopathies dégénératives, ce sont les macrophages Ly6Cpos qui stimulent fortement l’établissement de la fibrose en agissant directement sur les fibroblastes. De plus, ces macrophages Ly6Cpos, qui régulent négativement les fibroblastes au cours de la régénération musculaire, stimulent la différenciation des fibroblastes et myofibroblastes dans les myopathies. De plus, ils les protègent de l'apoptose, participant ainsi à la persistance de ces cellules fibrosantes. Ainsi, nous avons confirmé chez l’homme in vitro et in vivo, le rôle de support séquentiel des macrophages au cours de la régénération musculaire. De plus, nous avons identifié différents effecteurs sécrétés par les macrophages M1 et M2 impliqués dans la régulation du processus myogénique chez l'adulte. Nous avons également montré que lors des myopathies dégénératives et au cours de la régénération musculaire, les macrophages adoptent un phénotype et des fonctions totalement différents, avec notamment un rôle profibrotique des macrophages pro-inflammatoires. / Skeletal muscle has the ability to regenerate after a chemical or physical injury thanks to satellite cells, the muscle stem cells. After damage, satellite cells proliferate, differentiate and fused to reform muscle. Myogenic cells are not the only on cells involved. Previous studies in the laboratory showed that, in mice, macrophages are crucial for skeletal muscle regeneration. Soon after an injury, macrophages infiltrate damaged muscle and differentiate into Ly6Cpos pro-inflammatory (M1) macrophages. They stimulate proliferation of myoblasts and inhibit their fusion. Then, pro-inflammatory macrophages skew towards a Ly6Cneg anti-inflammatory phenotype (M2). Anti-inflammatory macrophages stimulate differentiation of myoblasts and protect them from apoptosis. Thus, depending on their phenotype, macrophages exert sequential trophic roles on myoblasts throughout muscle regeneration. Here, we showed in vitro that human macrophages also support different steps of myogenesis. M1 macrophages are strongly attracted by mpcs. Moreover, they secrete molecules, which stimulate proliferation of mpcs and inhibit their fusion. M2 macrophages attract mpcs and stimulate differentiation of mpcs in order to form large myotubes. Using specific blocking antibodies, we identified molecules involved in the regulation of myogenesis by M1 and M2 macrophages in a human in vitro system. In vivo analysis of regenerating human muscle sections confirmed our results obtained in vitro. M1 macrophages are preferentially associated with proliferating myogenic cells while M2 macrophages are associated with differentiating myogenic cells. In degenerative myopathies, we showed that macrophages are completely different from those present during skeletal muscle regeneration. We observed in mouse and human that M1 marker-expressing macrophages are associated with fibrosis while anti-inflammatory treatment reduced this population, in association with an improvement of the dystrophic muscle. Isolated Ly6Cneg macrophages exhibit a mixed M1/M2 phenotype. In ex-vivo coculture experiments, we showed that Ly6Cpos macrophages strongly favor establishment of fibrosis by directly acting on fibroblasts while in regenerating muscle, these Ly6Cpos macrophages negatively regulate fibrosis. To resume, we confirm in human the supportive sequential roles of macrophages during skeletal muscle regeneration in vitro and in vivo. Moreover, we identified effectors secreted by M1 and M2 macrophages involved in the regulation of the myogenic process. We also highlight that during muscle regeneration and in degenerative myopathies, macrophages exhibit different phenotype associated with opposite functions, with a pro-fibrotic role for pro-inflammatory macrophages.

Le macaque rhésus infecté par le virus de l’immunodéficience simienne (SIV) fait l’objet de nombreuses études en tant que modèle de la pathogenèse induite par le virus de l’immunodéficience humaine de type 1 (VIH-1). Il existe deux sous-espèces de macaque rhésus définies notamment d’après leur origine géographique. Le macaque rhésus indien montre une progression pathologique particulièrement rapide, caractérisée par une déplétion massive de la population lymphocytaire T CD4+ intestinale les jours suivant l’infection. Cette déplétion a été associée à la translocation des bactéries commensales à travers l’épithélium intestinal en phase chronique. En revanche, chez le macaque rhésus chinois la vitesse de développement de la maladie est comparable à celle des patients infectés par le VIH-1. En périphérie, les données virales et immunologiques sont également plus proches de ce qui est documenté chez l’Homme infecté. Toutefois, la cinétique de dégradation de la muqueuse intestinale les jours suivant l’infection reste peu explorée dans ce modèle. Dans un premier temps, mes travaux de doctorat ont permis de confirmer la dissémination rapide du SIV dans le tractus gastro-intestinal du macaque rhésus d’origine chinoise. L’intestin grêle, notamment l’iléon, est la cible d’une réplication virale soutenue et très précoce. Malgré une réplication virale intense, le nombre de lymphocytes T CD4+ dans la muqueuse de l’iléon reste constant durant les deux premières semaines suivant l’infection par le virus dans ce modèle. Nous observons en revanche une augmentation conséquente du nombre de cellules T cytotoxiques et de macrophages, suggérant la mise en place d’une forte réponse immune in situ. Nous démontrons que l’augmentation du nombre de ces cellules et le maintien du nombre de lymphocytes T CD4+ dans la muqueuse iléale sont certainement liés, du moins en partie, au recrutement de cellules circulantes. En effet, nous décrivons pour la première fois une augmentation significative de l’expression de nombreuses chimiokines par cette muqueuse dès les premiers jours suivant l’infection. En parallèle nous décrivons, dans le sang périphérique, une diminution transitoire du nombre de lymphocytes T CD4+ et CD8+. Enfin, nous avons décelé une augmentation de l’expression d’interleukine 7 (IL-7) après infection. Cette augmentation, spécifiquement observée dans la muqueuse de l’intestin grêle, est corrélée à l’expression des chimiokines. Ces résultats apportent de nouveaux éléments sur la contribution de l’IL-7 dans la régulation de l’expression des chimiokines par la muqueuse intestinale suite à l’infection par le SIV. L’ensemble de nos résultats démontre que la population de lymphocytes T CD4+ de l’intestin grêle est préservée au cours de l’infection aiguë par le SIV chez le macaque rhésus chinois. En parallèle, l’exacerbation de l’expression locale de chimiokines laisse supposer une relocalisation des cellules du système immunitaire vers la muqueuse intestinale. Ces migrations pourraient avoir des effets délétères pour l’hôte en apportant de nouvelles cibles nourrissant la réplication virale. A l’opposé, le recrutement localisé de cellules immunitaires clés pour le déclenchement des réponses antivirales innées et adaptatives pourrait limiter la réplication du virus. Il est donc crucial de mieux définir l’impact de ce recrutement sur l’immunité muqueuse et la progression de la maladie. Nos découvertes apportent également de nouveaux arguments en faveur de l’utilisation du macaque rhésus d’origine chinoise en tant que modèle de choix pour l’étude de la physiopathologie de l’infection humaine par le VIH-1. / As a model to study type 1 human immunodeficiency virus (HIV-1) pathogenesis, rhesus macaques infected with the simian immunodeficiency virus (SIV) are under extensive investigation. Two subspecies of rhesus macaques have been defined, based on a different geographic origin. Indian rhesus macaques exhibit a rapid disease progression and acute infection is characterized by a massive CD4 T-cell loss in the intestinal mucosa. This was associated to the translocation of bacterial products through the gut epithelium during the chronic stage. Contrary to the animals of Indian origin, the pathogenesis of Chinese rhesus macaques infected with SIV is similar to HIV-1 infected patients. Viral and immunological settings in periphery are also closer to what is described in infected humans. However, the kinetics of mucosal disruption is poorly documented in this model. As a first step, I confirmed the rapid SIV dissemination in the gastro-intestinal tract of Chinese rhesus macaques. The small intestine, in particular the ileum, undergoes an early and high viral replication. Despite this high viral load, the numbers of CD4+ T cells in the ileum mucosa remains unchanged during the first two weeks following infection in this model. On the other hand, we noticed a substantial augmentation of cytotoxic T-cell numbers and macrophages, suggesting the establishment in situ of a strong immune response. We demonstrated that this augmentation of CD8+ T cells and macrophages together with the maintenance of helper T-cell numbers in the ileum mucosa are most probably related, at least in part, to the recruitment of circulating cells. Indeed, we describe for the first time a significant augmentation of numerous chemokine expressions by this mucosa the first days post-infection. At the same time, we described a transient diminution of CD4+ and CD8+ T-cell numbers in the blood. Finally, we detected a significant upregulation of interleukine 7 (IL-7) expression after SIV infection. This increase, specifically observed in the small intestine mucosa, is correlated to chemokine expressions. These results highlight new evidences on IL-7 contribution in the regulation of chemokines expression following SIV infection. All together, our results revealed the preservation of CD4+ T cell population in the small intestine mucosa during the acute phase of SIV infection in Chinese rhesus macaques. Furthermore, the exacerbation of local chemokine expressions let us think that immune cells are relocated to the intestinal mucosa the first days after infection. These migrations could have deleterious effects to the host, bringing new targets for viral replication. On the other side, this localized recruitment of immune cells that are key players in intestinal immunity could restrict the replication of the virus. Consequently, it is of major importance to better define the impact of immune cells trafficking on intestinal mucosa integrity and disease progression. Our findings bring new arguments in favor of Chinese rhesus macaque as a suitable model to study HIV-1 pathogenesis.

La phagocytose, fonction fondamentale des macrophages, est un processus qui se décompose en deux étapes bien distinctes : les étapes précoces d’internalisation menant à la formation du phagosome et les étapes tardives de maturation du phagosome. Le virus de l’immunodéficience humaine de type I (VIH-1) infecte les macrophages, ce qui perturbe leurs fonctions. L’effet de l’infection virale dans ces cellules est peu caractérisé en comparaison des lymphocytes T. Des travaux antérieurs ont montré d’une part que l’étape précoce d’internalisation de larges particules et bactéries était bloquée de moitié dans les macrophages primaires humains infectés par le VIH-1 via Nef, la protéine de virulence majeure du virus et d’autres part, que la réponse cytokinique était atténuée chez les patients infectés. Ainsi, nous avons étudié l’effet du VIH-1 sur les étapes tardives de la phagocytose : la maturation du phagosome et l’activation des macrophages qui en résulte. Nous avons montré que le VIH-1 altère les étapes tardives de la phagocytose en inhibant la maturation du phagosome, définie par le recrutement de marqueurs tardifs de la voie d’endocytose, d’hydrolases et la production d’espèces réactives oxygénées. Malgré une pré-activation basale, les macrophages infectés par le VIH-1 sont incapables de répondre efficacement à une stimulation induite par phagocytose, ce qui conduit à une modulation de la réponse transcriptionnelle et cytokinique. La dynamique des microtubules et la migration centripète des phagosomes sont profondément affectées par le virus. De façon inattendue, la protéine virale Vpr est impliquée dans ces perturbations, alors que Nef ne joue pas de rôle notable. Nos résultats indiquent que les composants intracellulaires de la machinerie de tri endosomal sont détournés par le compartiment viral dans les macrophages infectés. Par cette étude, nous avons donc identifié la protéine Vpr comme nouveau modulateur de la dynamique des microtubules et du trafic intracellulaire, entraînant ainsi une altération profonde de la maturation du phagosome et de la clairance bactérienne dans les macrophages infectés. Ce travail contribue à mieux comprendre l’établissement d’infections opportunistes chez les patients infectés. / Phagocytosis, a crucial function of macrophages, is composed of two well defined steps : the early step of internalization leading to phagosome formation and the late step of phagosome maturation. The immunodeficiency virus type I (HIV-1) infects macrophages, which disturbs theirs functions. The effects of HIV-1 infection are poorly characterized in this cell type compared to T lymphocytes. Previous results have already shown that the early step of internalization of large particles and bacteria are half blocked by Nef in HIV-1 infected primary macrophages and that the cytokine response is attenuated in infected patients. Thus, we have studied the effect of HIV-1 infection on the late step of phagocytosis : phagosome maturation and the resulting macrophage activation. We shown that HIV-1 impairs late phagocytic events affecting the phagosome maturation, as defined by late endocytic markers and hydrolases recruitment, and reactives oxygens species production. HIV-1 infected macrophages exhibited a basal preactivation but appeared unable to respond efficiently to phagocytic triggers leading to cytokine and transcriptional modifications. Centripetal migration of phagosomes and microtubule dynamics were deeply altered upon viral infection. Surprisingly, the Vpr viral protein was implicated in these pertubations, while Nef was not. Our results revealed that elements of the endosomal sorting machinery were hijacked to the virus-containing compartments in HIV-infected macrophages. With this study, we identify Vpr as a modulator of the microtubule dynamics and intracellular trafficking, leading to alterations in phagosome maturation and bacterial clearance in HIV-1 infected macrophages. This work contribute to better understanding of the establishment of opportunistic infections in HIV-infected patients.

Chez les patients atteints de cancer, les cellules néoplasiques échappent au contrôle du système immunitaire en raison de leur faible immunogénicité et d'une capacité exacerbée à moduler le micro-environnement. Nous décrivons ici les effets de ce micro-environnement tumoral sur la différenciation locale et systémique des monocytes et l'impact de la présence de Macrophages-Associés aux Tumeurs (TAM) CD163+ sur la survie des patientes atteintes de cancer du sein. Par une analyse de cytométrie en flux, nous décrivons un composition hétérogène des sous-types de TAM CD163low et CD163high, où nous avons observé l'association entre une fréquence élevée de TAM CD163high et une faible infiltration des lymphocytes T CD3+. Par immunohistochimie sur une analyse rétrospective (±12 ans), nous avons démontré une forte corrélation entre la fréquence élevée de TAM CD163+ et un risque accru de progression pour les patientes (log-rank *p<0.05, n=238). In vitro, les monocytes CD14+ conditionnés par le micro-environnement tumoral présentent une différenciation biaisée en faveur des MΦ CD163highCD86lowIL-10high, que non seulement ne stimulent pas la prolifération des lymphocytes T CD4+ naïfs, mais inhibent fortement l'expansion et la production d'IFN-γ et de TNF-α par les lymphocytes T CD4+ préalablement activé. Cette différenciation de MΦ en M2-like (CD163highIL-10high) est associée à des quantités élevées de TGF-β, M-CSF et VEGF dans le micro-environnement tumoral. Par ailleurs, les monocytes circulants des patientes atteintes de cancer du sein présentent un profil cytokinique immunosuppresseur et sont biaisés vers une différenciation en MΦ et Mo-DCs qui présentant des capacités suppressives / In cancer patients, the neoplastic cells escape from the immune control because of their low immunogenicity and their exacerbated capacity to modulate the microenvironment. Here we describe the local and systemic effects of the tumor microenvironment on monocyte differentiation and the impact of the presence of Tmor Associated Macrophages (TAM) CD163+ on the survival of breast cancer patients. By flow cytometry analysis, we describe a heterogeneous composition of CD163low and CD163high TAM subtypes, where we observed the association between high frequency of CD163high TAM infiltration and low CD3+ T lymphocytes presence. By immunohistochemistry on a retrospective analysis (±12 years), we have shown a strong correlation between high frequency CD163+ TAM and an increased risk of progression for patients (log-rank *p<0.05, n= 238). In vitro, CD14+ monocytes conditioned by tumor microenvironment exhibit a biased differentiation towards a CD163highCD86lowIL-10high macrophages (MΦ) phenotype, that not only failed to stimulate the proliferation of naive CD4+ T cells, but strongly inhibited the expansion and the production of IFN-γ and TNF-α by activated-CD4+ T cells. This differentiation into M2-like MΦ (CD163highIL-10high) is associated with high levels of TGF-β, M-CSF and VEGF found in the tumor microenvironment. Furthermore, circulating monocytes of breast cancer patients produced an immunosuppressive cytokine profile and are biased towards the differentiation into MΦ and Mo-DCs that show suppressive capacities / O desenvolvimento do câncer é normalmente associado a desvios no sistema imune, principalmente devido a sua falha em perceber, reconhecer e eliminar células neoplásicas de maneira eficiente. Nesse contexto, duas Células Apresentadoras de Antígenos (APCs), Células Dendríticas (DCs) e Macrófagos (MΦ), têm um papel crucial na identificação de alterações nos tecidos e na estimulação da imunidade adaptativa antitumoral. No entanto, fatores derivados de tumores modulam essas APCs, impedindo a iniciação das respostas imunes e culminando no estabelecimento do câncer. Investigamos aqui como o microambiente tumoral poderia modular a diferenciação de monócitos em APCs in vitro e de modo sistêmico. Nossos dados revelaram que em cânceres de mama e ovário, Macrófagos-Associados a Tumores (TAMs) são a subpopulação mais frequente em leucócitos CD45+MHCII+, e são encontrados em uma frequência variável de TAMs CD163low ou TAMs CD163high. O último, (TAMs CD163high) expressaram maiores níveis de PD-L1 e elevada produção de IL-10 sob a ativação de LPS. Além disso, a análise retrospectiva por imunohistoquímica revelou uma forte correlação entre a presença de TAMs CD163+ e uma baixa taxa de sobrevida em pacientes com câncer de mama. Ainda, a alta frequência de TAMs CD163high foi correlacionada com um baixo infiltrado de células T CD3+. Monócitos saudáveis condicionados por sobrenadantes de tumores de mama tiveram sua diferenciação in vitro direcionada para um fenótipo CD163highIL-10high, células capazes de suprimir a expansão de células T naive CD4+ e a produção de IFN- γ e TNF-α via IL-10. Esse fenótipo adquirido por monócitos condicionados foi associado à presença de altos níveis de CCL22, M-CSF, TGF-β1, TGF-β3, e VEGF no microambiente tumoral. Interessantemente, avaliando os efeitos sistêmicos dos tumores, monócitos circulantes de pacientes com câncer de mama falharam em diferenciar-se em M1- MΦ na presença de GM-CSF/IFN-γ e mantiveram um fenótipo alterado CD163+/-IL-10+TNF-α+

L'une des particularités de Mycobacterium tuberculosis, agent pathogène de la tuberculose, est sa capacité à accumuler des lipides dans son cytoplasme, ce qui favorise son entrée en dormance. Le séquençage du génome de M. tuberculosis a permis d'identifier certains gènes codant pour des enzymes lipolytiques, parmi ceux-ci : le gène codant pour la protéine Rv3097c aussi appelée LipY (composée d'un domaine PE et d'un domaine lipase relié par un Linker). Dans la première partie de ce travail de thèse, nous avons procédé à la caractérisation biochimique de LipY, mais aussi de ses formes mutantes LipY(∆PE), LipY(∆149) et LipY(∆170), et à l'étude d'inhibition des membres de la famille Lip apparentés à la lipase hormono-sensible humaine (Lip-HSL). Nous avons pu déterminer les propriétés cinétiques de l'activité lipase de LipY et de ses différentes formes mutantes.Dans la seconde partie, nous nous sommes intéressés à la compréhension du rôle des différents domaines de LipY, et du linker dans l'hydrolyse des lipides au cours de l'infection en utilisant des macrophages spumeux (macrophage riche en lipides) infectés au préalable par des souches de M. bovis BCG recombinantes. Ces résultats et les hypothèses posées durant ce travail de thèse, pourraient être appuyés par l'obtention de la structure tridimensionnelle de LipY. Pour cela, nous avons initié et procédé à la cristallogenèse de LipY. La poursuite des études d'optimisation des cristaux obtenus pourrait permettre d'aller plus en profondeur dans l'élucidation du rôle et du mécanisme d'action de LipY. / Mycobacterium tuberculosis is a pathogenic agent, responsible of the tuberculosis, which can store lipids into the cytoplasm. This accumulation allows the bacteria to enter in the dormancy phase. The sequencing of M. tuberculosis genome, allows to identify some genes coding for lipolytic enzymes, among which a gene coding for Rv3097c protein, also called LipY. (possessing PE domain linkto a lipase domain). During my PhD thesis, we first biochemically characterized LipY and its mutant forms LipY(ΔPE); LipY(Δ149) and Lip(YΔ170) and studied the inhibition of Lip family members related to the human hormone-sensible lipase (Lip-HSL). We determined the kinetic properties for the lipase activity of LipY and its mutants. In the second part, based on these previous results, we studied the role of these different domains and the linker on the hydrolysis of lipids during the infection phase, in infected foamy macrophages (lipids rich). For these studies, we used foamy macrophages infected by recombinants strains of M. bovis BCG (LipY(wt) and its mutants.These results and hypothesis can be confirmed and supported by resolving the tridimensional structure of LipY. Crystallogenesis tests allowed us to have some crystals of LipY(wt), which after optimization would allow us to have a better understanding of the role and action mechanism of LipY.

La caméra à pixels hybrides XPAD3 intégrée dans le micro-CT PIXSCAN II est un nouveau dispositif dans lequel le comptage de photons remplace l’intégration de charges utilisée dans les systèmes de radiographie standard. XPAD3 apporte des avantages, en particulier l’absence de bruit de courant noir et la possibilité d’imposer un seuil de discrimination sur chaque pixel. Ces particularités ont pu être exploitées au cours de ce travail de thèse en imagerie préclinique classique sur petit animal et ont permis de faire la preuve de faisabilité d’un marquage ex vivo puis intra-vital des macrophages. D’autre part les capacités de cette caméra sont intéressantes pour le développement d’une nouvelle méthode d’imagerie spectrale dite au K-edge. L’imagerie au K-edge permet de différencier des compartiments contenant un agent de contraste par rapport à l’os dans des radiographies classiques. Elle est obtenue via l’étalonnage de 3 différents seuils autour de l’énergie de liaison de la couche K de l’agent de contraste considéré. Le développement d’un nouvel d’étalonnage avec l’utilisation de pixels composites a permis d’établir la preuve de concept d’un brevet et d’obtenir les premiers résultats sur souris vivantes en divisant le temps d’acquisition par 3 avec un compromis sur la résolution spatiale. Cette nouvelle approche peut être implémentée en "2 couleurs" pour séparer deux différents types d’agents de contraste. Ceci offre une nouvelle manière de visualiser des informations biologiques pertinentes dans un contexte applicatif visant à étudier de manière dynamique (longitudinale) l’interdépendance de la vascularisation et de la réponse immunitaire au cours du développement tumoral. / The hybrid pixel camera XPAD3 integrated in the micro-CT PIXSCAN II is a new device for which photon counting replaces charge integration used in standard X-ray CT. This novel approach involves advantages, in particular the absence of dark noise and the ability to set an energy threshold on each pixel of the detected photons. This features has been exploited during this thesis work for standard small animal preclinical imaging and permitted to establish the faisability of ex vivo, and then in vivo labelling of marcrophages. On another hand, the ability of this camera is of uppermost importance for the development of K-edge imaging approaches, which exploit spectral information on the counted photons. K-edge imaging permits to identify contrast agent compartiments with regards to bones in classical radiography. K-edge imaging is obtained by selecting, for each pixel calibration, those pixel that are set at one of the three different thresholds around the K-shell’s binding energy of the selected contrast agents and then to proceed with a subtraction analysis to the images obtained above and below the K-edge energy. We develop a new way of calibrating the XPAD3 detector that permits to provide the proof of concept of a patent, and to obtain the first results on living mice by dividing the acquisition time by three with a compromise on the resolution. This novel approach can be implemented in “2 colours” in order to separate clearly two different contrast agents. This brings a new way to visualize biological information and to provide possible future approaches for the study of the inter-dependance of vascularisation and inflammation during the tumor development.