Il termine malattia renale cronica (Chronic Kideny Disease: CKD) si riferisce a differenti condizioni caratterizzate da un progressivo declino della funzione renale. Le linee guida internazionali hanno definito la CKD come una condizione in cui siano presenti marcatori di danno renale e/o la velocità di filtrazione glomerulare stimata (Estimated Glomerular Filtration Rtae: eGFR) sia inferiore a 60 ml/min/1.73 m2 per almeno 3 mesi. L’insufficienza renale in stadio terminale è associata ad un alto rischio di malattia cardiovascolare (Cardiovascular Disease: CVD), la più frequente causa di morte in questi pazienti. Fattori di rischio “non-tradizionali” come: infiammazione cronica, stress ossidativo, deplezione proteico-energetica, disordini del metabolismo minerale e deficit di inibitori della calcificazione, partecipano alla patogenesi della CVD. L’infiammazione gioca un ruolo cruciale nella risposta fisiologica all’infezione e al danno renale e partecipa anche nell’evoluzione del danno renale irreversibile con la produzione di diverse molecole infiammatorie a partire da acidi grassi polinsaturi a lunga catena (Long Chain PolyuUsaturated Fatty Acids: LCPUFA) della serie Omega-6. La supplementazione di Omega-3, con effetto antinfiammatorio, nei pazienti affetti da CKD è stata ed è oggetto di molti studi, nonostante ciò, l’effetto sul danno renale è ancora poco chiaro. Comunque, è ampiamente riconosciuto che un alterato profilo lipidico possa determinare la progressione della patologia, inducendo lo stato infiammatorio. Inoltre, elevati/normali livelli di Omega-3 potrebbero essere associati al miglioramento della funzionalità renale, diminuendo quindi il rischio di peggioramento della malattia. Le concentrazioni e il rapporto di Omega-3 e Omega-6 sono strettamente associati alla salute del rene, poiché svolgono ruoli importanti in differenti vie metaboliche. Un altro aspetto, preso poco in considerazione, è l’effetto dei livelli di acidi grassi circolanti e dei loro metaboliti sullo stato infiammatorio e sulla sua modulazione. Il primo scopo di questo studio è stato quello di analizzare il profilo degli acidi grassi in soggetti anziani affetti da CKD. Sono stati arruolati 57 pazienti afferenti agli ambulatori di Nefrologia dell’Ospedale Maggiore Policlinico di Milano e sono stati raccolti campioni di sangue su cui è stata effettuata l’analisi del profilo lipidico. Negli ultimi anni, diversi studi hanno sottolineato la stretta associazione tra infiammazione a livello intestinale e peggioramento del quadro in pazienti con CKD. Il mantenimento di un ottimo stato del tratto gastrointestinale è fondamentale per assicurare lo stato di salute dell’ospite, contribuendo ai processi metabolici, fisiologici e immunologici. Le comunità batteriche instaurano un rapporto mutualistico con l’individuo che colonizzano, giocando un ruolo importante negli stati di salute e malattia. Un’anomala colonizzazione o cambiamenti nella composizione del microbiota intestinale, determina disbiosi, uno squilibrio associato a diverse condizioni patologiche come obesità, diabete di tipo II, malattia intestinale cronica, CVD e anche CKD. Il rapporto tra intestino e rene è bidirezionale, nei pazienti affetti da malattia renale cronica, la composizione del microbiota intestinale risulta essere modificata rispetto a quella del soggetto sano. Alti livelli di urea che si riversano facilmente nel tratto intestinale modificano il microambiente chimico con conseguente innalzamento del pH del colon che esercita una pressione selettiva a favore di specie ureasi-positive, responsabili della conversione dell’urea in ammoniaca. Lo strato protettivo di muco viene degradato e la permeabilità della barriera intestinale viene compromessa. In conseguenza di ciò si ha il passaggio di materiale batterico attraverso la mucosa e l’attivazione di un meccanismo infiammatorio. Nei pazienti con funzionalità renale compromessa, il rene perde progressivamente la capacità di eliminare sia le sostanze provenienti dal metabolismo umano, sia quelle della comunità microbica intestinale. Alcune di queste sostanze sono rappresentate dalle tossine uremiche, tra quelle di derivazione intestinale le principali e più studiate sono p-cresil solfato (PCS) e indossile solfato (IS). IS e p-CS, strettamente legate all’albumina sierica (Human Serum Albumin: HSA), non vengono eliminate facilmente ma rimangono nel torrente ematico. HSA è la più abbondante proteina sierica ed è la principale trasportatrice di composti esogeni ed endogeni, inclusi gli acidi grassi che sembrano rappresentare il maggior ligando endogeno della proteina. Multipli siti di legame vengono utilizzati per gli acidi grassi monoinsaturi (MonoUnsaturated Fatty Acids: MUFA) e PUFA. Acidi grassi e tossine uremiche competono quindi per gli stessi siti di legame sulla proteina. Il potenziale ruolo degli acidi grassi nel contrastare l’accumulo di tossine uremiche derivate dalla comunità batterica intestinale ne giustifica l’importanza della valutazione dei loro livelli ematici. Secondo scopo di questa tesi di dottorato è stato quello di valutare la possibile correlazione tra i livelli di acidi grassi circolanti e la composizione del microbiota intestinale in soggetti affetti da CKD. Sono stati arruolati nello studio 64 pazienti anziani con CKD non dializzati e 15 soggetti anziani con normale funzionalità renale. La composizione del microbiota intestinale è stata precedentemente caratterizzata attraverso l’impiego delle tecniche di elezione: PCR-DGGE e la PCR quantitativa (qPCR). In accordo con la letteratura scientifica, è stata evidenziata una riduzione di batteri saccarolitici e produttori di butirrato nei pazienti con CKD rispetto al gruppo di controllo. Il butirrato sembra giocare un ruolo cruciale nel mantenimento delle ottimali condizioni della barriera intestinale. Tenendo ciò in considerazione è stato deciso di approfondire lo studio e valutare l’associazione tra la comunità microbica intestinale e i livelli di acidi grassi basali in tali pazienti. Come risultato più importante ottenuto, è stata osservata una correlazione positiva statisticamente significativa tra la specie batterica Faecalibacterium Prausnitzii e i livelli totali di Omega-3 entrambi associati a proprietà antinfiammatorie. La presente tesi di dottorato evidenzia la necessità di sostenere ulteriori ricerche per supportare i risultati qui presentati. Studi futuri potrebbero essere utili per migliorare la comprensione del ruolo degli acidi grassi circolanti e i loro metaboliti sulla composizione del microbiota intestinale, sullo stato infiammatorio e sulla malattia renale cronica. / The aim of this thesis was to explore the possible associations between fatty acids (FA) profile and gut microbiota (gMb) with several conditions throughout the lifespan, from infancy to old age. In particular, we focused our attention on elderly subjects with Chronic Kidney Disease (CKD) and children with Acute Otitis Media (AOM). The terms “Chronic Kidney Disease” refers to several disorders with a progressive kidney function decline. International guidelines approved the definition of CKD as a condition with the presence of markers of kidney damage or with the estimated glomerular filtration rate (eGFR) less than 60 ml/min/1.73 m2 or both, for at least three months. End-stage renal disease is associated with a high cardiovascular disease (CVD) risk, the major cause of death in these patients. Chronic inflammation, oxidative stress, protein-energy wasting, disordered mineral metabolism, and deficiency of endogenous calcification inhibitors, known as non-traditional risks factor, take part in cardiovascular pathology in CKD. Inflammatory processes influence the physiological response to renal infection and injury but also participate in the development of potentially irreversible kidney damage with the production of various inflammatory molecular species, among whom eicosanoids and cytokines, from parental omega-6 long-chain polyunsaturated fatty acids (LCPUFA). Several studies focused their attention on the potential role of omega-3 (n-3) LCPUFA supplementation in subjects with CKD. Despite this, their effect on kidney damage is still not clear. However, it is widely agreed that a modified FA profile in CKD can determine a progression of the disease, inducing the inflammatory state. Moreover, high/normal n-3 LCPUFA levels decrease the risk of a decline of the disease. Omega-3 and omega-6 (n-6) LCPUFA concentrations and their ratios are tightly associated with renal health, because of their important roles in different pathways. Another aspect not very considered in the field of CKD is the role of circulating FA levels and their metabolites on the modulation of inflammation. The first aim of this study is to analyze the FA profile in elderly subjects with CKD. Blood samples have been collected from 57 subjects enrolled in the study, and FA analysis has been performed. During the last years, several studies underlined the strong relationship between intestinal inflammation and adverse outcomes in CKD. The health of gastrointestinal tract is fundamental to ensure the well being of the host contributing to its nutrition, metabolism, physiology, and immune function. The bacterial communities colonizing humans have been seen in terms of mutualistic symbiosis with their hosts, a mutually beneficial coexistence, playing an important role in health and disease. Abnormal colonization or changes in the gut microbial composition determine dysbiosis, a state associated with different illnesses, such as obesity, type 2 diabetes, inflammatory bowel disease, cardiovascular disease, and also chronic kidney disease. The relationship between gut and kidney is a bi-directional relation with a mutual influence. Chronic kidney disease influences gMB characteristics, especially through high levels of urea that easily spread in the intestinal fluid where bacterial urease enzymes degrade it, then it is hydrolyzed in ammonium hydroxide that increases fecal pH with a consequent alteration of intestinal cellular junctions. Besides, high levels of urea change intestinal microbiota composition damaging permeability of intestinal barrier and promoting proteolysis with production and absorption of uremic toxins, such as indoxyl sulfate (IS) and p-cresol sulfate (p-CS). These toxins induce an inflammatory process associated with CKD. Under physiologic conditions, the kidney through the urine eliminates these compounds, but CKD patients have a compromised renal clearance. Therefore, these solutes tend to accumulate in the organs. IS and p-CS are tightly bound to human serum albumin (HSA), the most abundant plasma protein in the bloodstream. HSA is recognized as the main means of transport for endogenous and exogenous compounds, including fatty acids that seem to be the main endogenous ligand of HSA, multiple binding sites are used for monounsaturated fatty acids (MUFA) and PUFA. Thus, free fatty acids and uremic toxins compete for the same binding sites on HSA. It is important to assess fatty acid (FA) levels in patients with CKD because of the potential role to contrast the accumulation of uremic toxins derived from the intestinal bacterial community. As a consequence of this bi-directional relation between gut and kidney and the possible involvement of some compounds as metabolites of FA in the inflammatory response, we investigate the correlation between circulating FA levels and the gMB composition in the same subjects with CKD, as the second aim of this thesis. 64 old CKD non-dialysis patients (eGFR 15-45 ml/min/1.73 m2) and 15 elderly subjects (>65 years) with normal renal function (eGFR >60 ml/min/1.73 m2, CKD-EPI) are enrolled. Bacterial composition was studied in a previous observational study by denaturating gel gradient electrophoresis (DGGE), high-throughput sequencing (16S ribosomal RNA), and quantitative real-time PCR (qPCR). This study described an increased abundance of some bacteria associated with pathological conditions. In agreement with the literature, the author found a reduced abundance of saccharolytic and butyrate-producing bacteria (Prevotella, Faecalibacterium prausnitzii, Roseburia) in CKD patients respect to the control group. Butyrate plays a crucial role in the maintenance of the gut barrier function. Taking that into account, we decided to investigate the correlation between gMB composition and FA profile in these subjects. The main result of the study was the significant positive correlation between Faecalibacterium prausnitzii and total n-3 levels, both associated with the antiinflammatory action. The present doctoral thesis underlines the need to perform further investigations in order to support evidence presented. Future studies may be useful to improve understanding of the effect of circulating fatty acids levels and their metabolites on gut microbial composition, inflammation process, and pathological conditions such as kidney disease. Our results showed that CKD patients with previous cardiovascular events had lower total and specific n-3 levels comparing with patients without them. Moreover, higher docosahexaenoic acid (DHA) levels and having had previous cardiovascular events seemed to have protective effects against further cardiovascular events. Moreover, we observed a significant reduction of the genera Roseburia and Faecalibacterium in CKD patients compared to C group and a significant lower abundance of F. prausnitzii and Roseburia spp. in CKD patients. Thus, our results seem in accordance with anti-inflammatory actions of total n-3, DHA, and saccharolytic and butyrateproducing bacteria. Many gMB changes seem to be related both to CKD and CVD. If the different gMB composition might play a causal role in cardiovascular events by an unbalanced production of some toxic substances, or if the gMB changes are merely a consequence of different dietary and lifestyle behaviours of these patients, it cannot be explained by the present study and all the yet available data. Further studies, possibly utilizing new high-throughput tools, will be required to understand the potential correlations between the gMB composition and other inflammation and oxidative stress markers in these patients. Other two studies have been performed during the doctoral course, to reach a better comprehension of fatty acids, gut microbial community and inflammatory states. A prospective pilot clinical study has been performed to to explore possible changes of gMB composition in children with AOM treated with amoxicillin with or without clavulanic acid. AOM is one of the most common bacterial infections in children and is normally treated with antibiotic therapies that lead to increasing antimicrobial resistance rates among otopathogens and may impair the correct development of the microbiota in early life. No significant differences were shown in the gMB composition of the overall cohort at different time intervals of the samples collection and in subjects treated with amoxicillin with or without clavulanic acid at different time intervals (T0, T1 and T2). A literature revision on lipids in infant formulae has been performed to better understanding quality and quality of dietary lipids because of their significant impact on health outcomes, especially when fat storing and/or absorption are limited (e.g., preterm birth and short bowel disease) or when fat byproducts may help to prevent some pathologies. The lipid composition of infant formulae varies according to the different fat sources used, and the potential biological effects are related to the variety of saturated and unsaturated FAs. Instead, ruminant-derived trans FAs and metabolites of n-3 LCPUFA with their anti-inflammatory properties can modulate immune function. Furthermore, dietary fats may influence the nutrient profile of formulae, improving the acceptance of these products and the compliance with dietary schedules. During the doctoral course, I spent a period abroad at Dell Pediatric Research Institute (DPRI), The University of Texas at Austin. In particular, I attended the laboratory of Doctor Brenna. I focused my research activity on a specific regulatory insertion-deletion polymorphism in the FADS gene cluster for better understanding its influence on PUFA and lipid profile.

L’intestin est un organe majeur de l’organisme de par ses fonctions et sa localisation, établissant une barrière active avec un environnement complexe composé du microbiote intestinal, des aliments digérés et d’éléments sécrétés par l’hôte. Outre ses fonctions digestives, absorptives et immuno-modulatrices, l’intestin est également un important organe endocrinien, sécrétant une vingtaine d’hormones régulant des fonctions physiologiques telles que la prise alimentaire, le métabolisme énergétique ou la digestion et le transit intestinal. Ces hormones sont produites par une famille de cellules épithéliales, les cellules entéroendocrines, et sécrétées en réponse à l’activation de récepteurs reconnaissant des éléments du contenu intestinal. En particulier, les cellules entéroendocrines de type L sécrètent GLP-1 et Peptide YY (PYY), impliqués respectivement dans le contrôle de la sécrétion d’insuline et dans la régulation de la prise alimentaire ainsi que le contôle du transit intestinal. Elles sont majoritairement localisées dans l’iléon et le côlon, là où le microbiote intestinal est le plus dense. Le microbiote intestinal permet notamment la fermentation des fibres en acides gras à chaîne courte (AGCC), la production de vitamines, la maturation du système immunitaire de l’hôte et joue lui-même un rôle de barrière contre les pathogènes. Un dialogue entre le microbiote intestinal et l’hôte est nécessaire dans le maintien de l’homéostasie intestinale, nécessitant la reconnaissance par l’hôte de produits bactériens. En particulier, les récepteurs Toll-Like (TLR) permettent la reconnaissance de motifs moléculaires microbiens conservés et sont impliqués dans l’immunité innée de l’hôte. Certains produits bactériens ont également un rôle physiologique tels que les AGCC qui sont une source d’énergie importante pour les colonocytes, en plus d’activer des voies de signalisation. Il a été montré que des régimes riches en fibres, et donc permettant une production accrue d’AGCC, ou plus directement l’administration d’AGCC dans le colon, induit chez l’Homme ou la souris une augmentation des concentrations plasmatiques de PYY, par des mécanismes encore peu compris. En utilisant des lignées cellulaires humaines modèles de cellules entéroendocrines, nous avons caractérisé les effets des AGCC et des motifs bactériens reconnus par les TLR sur l’expression et la sécrétion de PYY et les réponses calciques dans ces cellules. Nous avons pu démontrer que les TLR sont exprimés de manière fonctionnelle, à l’exception de TLR4 et TLR8 dans ces cellules, et que le butyrate augmente leur expression et leur activité. De plus, la stimulation des TLR augmente l’expression de Pyy d’un rapport de 2, mais a peu d’effet sur la sécrétion dans ces cellules. Les AGCC ont des effets divers sur l’expression et la sécrétion de PYY. Alors que le butyrate et le propionate augmentent très fortement l’expression de Pyy, par des rapports respectivement de 120 et 40, par un mécanisme d’inhibition des déacétylases d’histone et de lysine, l’acétate augmente l’expression de Pyy plus modestement par l’activation des récepteurs aux AGCC FFAR2 et FFAR3. L’activation de FFAR2 par les AGCC induit une forte réponse calcique oscillatoire induisant la sécrétion de PYY alors que l’activation de FFAR3 et de GPR109a par le butyrate diminue la concentration calcique cellulaire et réduit les réponses sécrétoires. Ainsi, les AGCC augmentent la production de PYY et régulent sa sécrétion, mais avec et par des effets différents. Ces travaux ont permis de montrer le rôle des cellules entéroendocrines humaines de type L dans la reconnaissance de produits bactériens par l’expression de TLR et par leurs réponses aux AGCCs modulant l’expression et de la sécrétion de PYY. De plus, ces résultats ont déterminés en partie les mécanismes impliqués dans la réponse bénéfique de l’hôte à la consommation de fibres et l’augmentation de la production d’AGCC. / The human gut exerts major functions, mainly due to its localization and by forming an active barrier between a complex environment made of the gut microbiota, digested food products and secreted elements by the host. The main functions of the gut are digestion and absorption of nutrients and it is the first pool of immune cells and a barrier against pathogens, but the gut is also a main endocrine organ secreting more than twenty different hormones. These hormones regulate a wide range physiological functions including food intake, energy metabolism or digestion. Enteroendocrine cells, a sparse family of intestinal epithelial cells, produce and secrete these hormones in response to the activation of a variety of receptors that sense luminal content. Among them, L-cells secrete GLP-1 and Peptide YY (PYY) that are implicated in the regulation of insulin secretion, food intake and intestinal motility. They are mainly found in the distal ileum and in the colon where the microbiota is the densest. Gut microbiota ferments fibers into short chain fatty acids (SCFAs), produces vitamins, participates in regulation of host immune system and is a barrier against pathogens. The cross talk between microbiota and intestinal epithelium is important to maintain the local homeostasis, and is mediated by host receptors recognizing microbial products. Among them, Toll-like receptors (TLRs) recognize conserved microbial associate molecular patterns (MAMPs) and participate to the host innate immunity. Some microbial products also have important functions for the host such has SCFAs that are an important energy substrate for colonocytes and can also activate different signaling pathways. It was shown that fiber-rich diets, increasing production of SCFAs, as well as direct administration of SCFAs in the colon in humans or mice increased PYY plasma levels through mechanisms still undeciphered. Taking advantage of human cell lines as L-cell models, we assessed the different effects of SCFAs and TLR stimulation on PYY expression and secretion and calcium signaling in these cells. We showed that TLRs are functionally expressed in these cells at the exception of TLR4 and TLR8, and that butyrate, one of the three main SCFAs produced by the microbiota increases cell sensitivity to TLR stimulation by increasing their expression. Moreover, TLR stimulation increases Pyy expression by a fold of two but has little effect on secretion. SCFAs differently regulate Pyy expression. Propionate and butyrate highly increase Pyy expression by a fold of 40 and 120 respectively, and their effects are mainly mediated by inhibition of lysine/histone deacetylases whereas acetate increases expression of Pyy by a fold of 1.8 through stimulation of FFAR2 and FFAR3. SCFAs also induce a strong FFAR2-dependent oscillatory response monitoring PYY secretion whereas butyrate via FFAR3 and GPR109a decreases cytosolic calcium concentration and consequently reduces secretory responses. Thus, SCFAs differently increase PYY production and secretion depending of their chain length. Altogether, these results highlight the role human L-cells in microbiota-host crosstalk by sensing microbial products through expression of TLRs and their responses to SCFAs modulating PYY production and secretion. Furthermore, we deciphered some of the mechanisms implicated in beneficial host response to enriched fiber diets and increased production of SCFAs.

L’avènement du séquençage métagénomique aléatoire a révolutionné la microbiologie en permettant la caractérisation sans culture préalable de communautés microbiennes complexes telles que le microbiote intestinal humain. Des outils bioinformatiques récemment développés atteignent une résolution au niveau de la souche en recensant des gènes accessoires ou en capturant des variants nucléotidiques (SNPs). Toutefois, ces outils sont limités par l’étendue des génomes de référence disponibles qui sont loin de couvrir toute la variabilité microbienne. En effet, de nombreuses espèces n’ont pas encore été séquencées ou sont représentées par seulement quelques génomes.La création de catalogues de gènes non redondants par assemblage de novo suivie du regroupement des gènes co-abondants révèlent une partie de la matière noire microbienne en reconstituant le répertoire de gènes d’espèces potentiellement inconnues. Bien que les méthodes existantes identifient avec précision les gènes core présents dans toutes les souches d’une espèce, elles omettent de nombreux gènes accessoires ou les divisent en petits groupes de gènes qui ne sont pas associés aux core génomes. Or, capturer ces gènes accessoires est indispensable en recherche clinique et épidémiologique car ces derniers assurent des fonctions spécifiques à certaines souches telles que la pathogénicité ou la résistance aux antibiotiques.Lors de cette thèse, nous avons développé MSPminer, un logiciel performant qui reconstitue et structure des pan-génomes d’espèces métagénomiques (ou MSPs pour Metagenomic Species Pan-genomes) en regroupant les gènes co-abondants dans un ensemble d’échantillons métagénomiques. MSPminer s’appuie sur une nouvelle mesure robuste de la proportionnalité couplée à un classificateur empirique pour regrouper et distinguer les gènes core mais aussi les gènes accessoires des espèces microbiennes.Grâce à MSPminer, nous avons structuré un catalogue de 9,9 millions de gènes du microbiote intestinal humain en 1 661 MSPs. L’homogénéité de l’annotation taxonomique, de la composition nucléotidique ainsi que la présence de gènes essentiels indiquent que les MSPs ne correspondent pas à des chimères mais à des objets biologiquement cohérents regroupant des gènes provenant de la même espèce. Parmi ces MSPs, 1 301 (78%) n’ont pas pu être annotées au niveau espèce montrant que de nombreux microorganismes colonisant l’intestin humain demeurent inconnus malgré les progrès substantiels des techniques de culture microbienne. Remarquablement, les MSPs capturent bien plus de gènes que les clusters générés par les outils existants tout en garantissant une spécificité élevée.Cet ensemble de MSPs peut d’ores et déjà être utilisé pour le profilage taxonomique et la découverte de biomarqueurs dans des échantillons de selles humaines. Ainsi, nous tirons parti des MSPs pour comparer l’impact sur le microbiote intestinal des deux principaux types de chirurgie bariatrique, la gastrectomie par laparoscopie (LSG) et la dérivation gastrique de Roux-en-Y (LRYGB). Enfin, les MSPs ouvrent la voie à des analyses au niveau souche. Dans une autre cohorte, nous avons mis en évidence l’existence de sous-espèces associées à l’origine géographique de l’hôte en étudiant les profils de présence/absence des gènes accessoires groupés dans les MSPs. / The advent of shotgun metagenomic sequencing has revolutionized microbiology by allowing culture-independent characterization of complex microbial communities such as the human gut microbiota. Recently developed bioinformatics tools achieved strain-level resolution by making a census of accessory genes or by capturing nucleotide variants (SNPs). Yet, these tools are hampered by the extent of available reference genomes which are far from covering all the microbial variability. Indeed, many species are still not sequenced or are represented by only few genomes.Building of non-redundant gene catalogs followed by the binning of co-abundant genes reveals a part of the microbial dark matter by reconstituting the gene repertoire of species potentially unknown. While existing methods accurately identify core genes present in all the strains of a species, they miss many accessory genes or split them into small gene groups that remain unassociated to core genomes. However, capturing these accessory genes is essential in clinical research and epidemiology because they provide functions specific to certain strains such as pathogenicity or antibiotic resistance.In this thesis, we developed MSPminer, a computationally efficient software tool that reconstitutes Metagenomic Species Pan-genomes (MSPs) by binning co-abundant genes across metagenomic samples. MSPminer relies on a new robust measure of proportionality coupled with an empirical classifier to group and distinguish not only species core genes but accessory genes also.With MSPminer, we structured a catalog made up of 9.9 million genes of the human gut microbiota in 1 661 MSPs. The homogeneity of the taxonomic annotation, of the nucleotide composition as well as the presence of essential genes indicate that the MSPs do not correspond to chimeras but to biologically consistent objects grouping genes from the same species. Among these MSPs, 1 301 (78%) could not be annotated at species level showing that many microorganisms colonizing the human intestinal tract are still unknown despite the substantial improvements of microbial culture techniques. Remarkably, MSPs capture more genes than clusters generated by existing tools while ensuring high specificity.This set of MSPs can be readily used for taxonomic profiling and biomarkers discovery in human gut metagenomic samples. In this way, we take advantage of the MSPs to compare the impact of two main types of surgeries, the laparoscopic sleeve gastrectomy (LSG) and the Roux-En-Y gastric bypass (LRYGB). Finally, the MSPs open the way to strain-level analyses. In another cohort, we identified subspecies associated the host geographical origin by studying presence/absence patterns of the accessory genes grouped in the MSPs.

No description available.

Le cancer colorectal (CCR) est le 3ème plus diagnostiqué au Canada. Son traitement implique une résection chirurgicale du côlon ou du rectum, et une reconnexion des deux bouts intestinaux pour rétablir la continuité gastrointestinale. Cette reconnexion, appelée « anastomose », peut ne pas bien guérir chez jusqu’à 30% des patients, ce qui mène à une complication morbide et mortelle appelée « fuite anastomotique ». En plus de diminuer la survie et la qualité de vie, la fuite est possiblement associée à une récidive accrue du cancer pour des raisons qui demeurent obscures. Malgré des progrès techniques importants dans les dernières décennies, les taux de fuite n’ont pas significativement diminué, et sa survenue demeure hautement imprévisible. Des données récentes ont suggéré que le microbiote intestinal, ou la collection de microorganismes dans l’intestin, peut influencer le processus de guérison après la chirurgie, mais l’évidence sur cette relation reste faible. Les études suivantes visaient donc à évaluer le lien causal entre le microbiote, la fuite anastomotique le CCR. En utilisant des échantillons de selles collectés avant la chirurgie de 18 patients avec CCR (9 avec fuite et 9 sans fuite), on a évalué le rôle causal du microbiote humain chez des souris assujetties à une greffe de microbiote fécal (GMF) puis une chirurgie colique. On a trouvé que la GMF avec des échantillons de patients avec fuite a entrainé chez la souris une mauvaise guérison anastomotique, un affaiblissement de la matrice extracellulaire dans la plaie colique, et une inflammation accrue localement. On a identifié 2 souches bactériennes, Parabacteroides goldsteinii kh35 et Alistipes onderdonkii kh33, qui influençaient la guérison anastomotique, la 1ère positivement et la 2ème négativement. Ces souches modulaient l’inflammation dans la muqueuse colique, avec P. goldsteinii exerçant un effet anti-inflammatoire et A. onderdonkii un effet pro-inflammatoire. En utilisant des échantillons de muqueuses collectés de patients avant la complétion de l’anastomose, on a trouvé avec une analyse multiplex que les patients présentant une fuite avaient des niveaux basaux plus élevés des macrophage inflammatory protein-1 alpha, monocyte chemoattractant protein-1, macrophage inflammatory protein 2 et interleukin-17A/F, et que le microbiote de ces patients entraine une augmentation similaire de ces cytokines pro-inflammatoires dans l’intestin des souris. Pour corroborer l’hypothèse que les patients présentant une fuite après la chirurgie avaient des niveaux basaux plus élevés d’inflammation intestinale de bas-grade induite par le microbiote, on a quantifié 9 cytokines dans la muqueuse colorectale de 77 patients avec CCR, pami lesquels 13 ont présenté une fuite après la chirurgie. Les 9 cytokines étaient plus élevées chez les patients ayant développé une fuite. On a exploré des marqueurs inflammatoires potentiels dans les selles, et qui peuvent être utilisés comme des biomarqueurs de dépistage avant la chirurgie, et avons identifié la calprotectine et la lipocaline-2 comme étant significativement différentes entre les patients présentant, ou pas, une fuite anastomotique. Ensuite, on a exploré si des métabolites bactériens peuvent être utilisés pour améliorer la guérison anastomotique. Les acides-gras à courte chaine (AGCCs) sont produits dans le côlon après la fermentation bactérienne de fibres alimentaires. On a ainsi testé si une supplémentation chez la souris avec de l’inuline ou des galacto-oligosaccharides (GOS), deux oligosaccharides fermentables, peut améliorer la guérison. On a trouvé que l’inuline et le GOS ont augmenté les niveaux du bénéfique AGCC butyrate, amélioré la guérison anastomotique, favorisé la réparation épithéliale, la déposition du collagène et la barrière intestinale. Enfin, puisque le butyrate est connu pour son effet anticancérigène via une activation peroxysome proliferator-activated receptor gamma (PPAR-γ), on a investigué la relation entre l’amélioration de la guérison intestinale postopératoire avec l’inuline et le 5-aminosalicylate (5-ASA), un activateur de PPAR-γ, et la récidive du CCR. Une revue de la survie postopératoire de patients avec CCR ayant, ou pas, présenté une fuite a été effectuée. L’effet d’une supplémentation alimentaire avec de l’inuline ou du 5-ASA sur les tumeurs anastomotiques a été évalué chez des souris subissant une chirurgie colique. L’inuline et le 5-ASA ont été aussi évalués dans un modèle murin de métastases hépatiques où les cellules de CCR étaient inoculées chirurgicalement dans la rate. Les patients présentant une fuite présentaient une survie globale et oncologique moindre que les patients sans fuite. Une mauvaise guérison anastomotique chez la souris a entrainé des tumeurs anastomotiques et péritonéales plus volumineuses. L’inuline et le 5-ASA ont renforcé la barrière intestinale et prévenu les tumeurs anastomotiques et dissémination métastatique chez la souris. Ces trouvailles renforcent l’hypothèse que prévenir la fuite améliore les issues oncologiques des patients avec CCR, et ouvre la voie à des essais cliniques où des interventions modifiant le microbiote seraient utilisées pour favoriser la guérison et diminuer la récidive du cancer. En résumé, on a démontré pour la première fois le lien causal entre le microbiote intestinal préopératoire et la guérison anastomotique chez les patients avec CCR. On a aussi identifié des biomarqueurs potentiels qui peuvent être utilisés en pratique pour détecter l’inflammation subclinique de bas-grade induite par le microbiote pour prédire la guérison avant la chirurgie. On a aussi démontré que le microbiote et PPAR-γ peuvent être modulés avec des oligosaccharides fermentables pour améliorer la guérison, renforcer la barrière intestinale et prévenir la récidive du cancer. / Colorectal cancer (CRC) is the third most diagnosed cancer in Canada. Its treatment involves a surgical resection of the colon or rectum, and a reconnection of the remaining bowel segments to re-establish gastrointestinal continuity. This reconnection, termed “anastomosis”, may fail to heal and leak in up to 30% of patients, which leads to a morbid and mortal complication called “anastomotic leak” (AL). In addition to decreasing survival and quality of life, AL may be linked to higher cancer recurrence for reasons that remain unclear. Despite significant technical progress over the last decades, the rates of AL have not significantly decreased, and its occurrence remains highly unpredictable. Recent data have suggested that the gut microbiota, or the collection of microorganisms in the gut, may influence the healing process after surgery, but evidence on this relation remains weak. The following studies aimed therefore at assessing the causal link between the gut microbiota, AL, and CRC in patients undergoing surgery. Using fecal samples collected before surgery from 18 patients with CRC (9 with AL and 9 without AL), we assessed the causal role of the human microbiota in mice subjected to fecal microbiota transplantation (FMT) then colonic surgery. We found that FMT from AL patients led to poor anastomotic healing, a weakened extracellular matrix in the colonic wound, and heightened inflammation locally. We identified 2 bacterial strains, Parabacteroides goldsteinii kh35 and Alistipes onderdonkii kh33, that were found to influence anastomotic healing, the first one positively and the second one negatively. These strains were found to modulate inflammation in the colonic mucosa, with P. goldsteinii exerting an anti-inflammatory effect and A. onderdonkii a pro-inflammatory effect. Using mucosal samples collected from patients before the completion of the anastomosis, we found with a multiplex assay that patients experiencing AL harbor higher basal levels of macrophage inflammatory protein- 1 alpha, monocyte chemoattractant protein-1, macrophage Inflammatory Protein 2 and interleukin-17A/F, and that the microbiota of these patients lead to the same increase in pro-inflammatory cytokines in mice. To corroborate the hypothesis that patients experiencing AL after surgery harbor higher basal levels of microbiota-driven low-grade inflammation in the gut, we quantified 9 cytokines in the colorectal mucosa of 77 patients with CRC, among whom 13 experienced AL after surgery. All 9 cytokines were found to be increased in patients developing AL. We explored potential fecal inflammatory markers that could be used as screening biomarkers before surgery, and identified calprotectin and lipocalin-2 as being significantly different between patients that subsequently developed, or not, AL. 4 Next we explored whether bacterial metabolites may be used to improve anastomotic healing. Short-chain fatty acids are produced in the gut upon bacterial fermentation of dietary fibers. We therefore tested in mice whether dietary supplementation with inulin or galacto-oligosaccharides (GOS), two fermentable oligosaccharides, could improve healing. We found that inulin and GOS increased the levels of the beneficial SCFA butyrate, improved anastomotic healing, promoted epithelial repair, collagen deposition and the gut barrier function. Finally, as butyrate is known to exert anticarcinogenic effect by stimulating the nuclear receptor peroxisome proliferator-activated receptor gamma (PPAR-γ), we further investigated the relationship between promotion of postoperative intestinal healing using inulin and 5-aminosalicylate (5-ASA), a PPAR-γ activator, and CRC recurrence. A review of postoperative survival of CRC patients with and without AL was performed. The effect of dietary supplementation with inulin and 5-ASA on local anastomotic tumors was assessed in mice undergoing colonic surgery. Inulin and 5- ASA were also assessed in a mouse model of liver metastasis where CRC cells are surgically inoculated into the spleen. Patients experiencing AL displayed significantly lower overall and oncological survival than non-AL patients. Poor anastomotic healing in mice led to larger anastomotic and peritoneal tumors. Inulin and 5-ASA reinforced the gut barrier and prevented anastomotic tumors and metastatic spread in mice. These findings reinforce the hypothesis that preventing AL improves oncological outcomes in patients with CRC, and pave the way towards clinical trials in which microbiotatargeted interventions may be used to enhance healing and diminish cancer recurrence. In summary, we demonstrated for the first time the causal link between the preoperative gut microbiota and anastomotic healing in patients with CRC. We also identified potential biomarkers that could be used in practice to detect microbiota-driven subclinical inflammation and predict healing before surgery. We also showed that the gut microbiota and PPAR-g could be modulated using fermentable oligosaccharides to improve healing, reinforce the gut barrier and prevent cancer recurrence.

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No description available.

We have previously demonstrated that long-term dietary Se deficiency in old Terc-/- mice with humanized telomeres induces type-2 diabetes and exacerbates age-dependent increases in the abundance of A. muciniphila and Lachnospiraceae, which are related to obesity and metabolic syndromes. The objectives of this dissertation are: 1) to determine the minimum intake of Se required for type 2 diabetes prevention in middle-aged mice; 2) to evaluate the efficacy of A. muciniphila and R. torques (a Lachnospiraceae family member) to intervene dietary Se deficiency-induced type 2 diabetes and the underlying mechanisms; 3) to assess sex differences in the responses to dietary Se deficiency and oral gavage of such bacteria. Our results demonstrated that mice fed diets containing ≤0.10 mg Se/kg developed glucose intolerance and insulin resistance at middle-aged stage. To address objectives 2 and 3, we showed that dietary Se deficiency exacerbated type-2 diabetes-like phenotypes in males but the extent was less in females aged 7 and 13 months. Oral gavage of A. muciniphila into either antibiotics-treated or conventional mice ameliorated these phenotypes and elevated beneficial bacteria (Lactobacillus, F. prausnitzii, and Roseburia spp./E. rectale) abundance, but reduced E. coli abundance. Dietary Se deficiency decreased intestinal barrier functions and induced intestinal inflammation. In conventional mice, A. muciniphila oral gavage reversed such intestinal defects but did not affect the expression of selenoproteins. By contrast, oral gavage of R. torques did not restore dietary Se deficiency-induced type 2 diabetes-like phenotypes in female mature mice and showed opposite impacts on the change of the 4 specific genera in comparison with A. muciniphila oral gavage. Taken together, our findings demonstrate that suboptimal body Se status induces type 2 diabetes and reshapes gut microbiota in an age- and sex-dependent manner. Such metabolic defects in conventional Se-deficient mice can be alleviated by A. muciniphila but not R. torques supplement, which may counteract common intestinal defects in metabolic syndrome. In conclusion, optimal Se at nutritional level of intake is necessary to prevent type 2 diabetes. A. muciniphila is a promising supplement for alleviation of type 2 diabetes and possibly other metabolic diseases in relation to intestinal inflammation and glucose dysregulation.

[ES] El alcohol es una de las drogas más aceptadas y consumidas a nivel mundial, y su ingesta crónica causa alteraciones en el sistema nervioso central, desde desmielinización hasta muerte neural. Se ha demostrado que gran parte de estos efectos estarían mediados por la activación del sistema inmune innato, principalmente a través del receptor TLR4, que desemboca en un estado inflamatorio. Para ahondar en estos mecanismos, en esta tesis se pretende analizar si el consumo crónico de etanol puede causar modificaciones en los miARNs de la corteza cerebral, regulando la expresión de genes proinflamatorios asociados a la ruta de señalización del TLR4 y si el uso de la curcumina como terapia es capaz de disminuir estos efectos. Además, analizaremos si el consumo de alcohol a largo plazo es capaz de alterar la microbiota intestinal, y la implicación del TLR4 en estos procesos. Nuestros resultados demuestran que el etanol es capaz de alterar la expresión de diferentes microARNs que regulan la expresión de genes proinflamatorios y asociados a la vía del TLR4. La ausencia del receptor causa un perfil de expresión distinto tanto en los controles como en los animales alcohólicos crónicos. Puesto que en los últimos años nos hemos interesado en la búsqueda de una posible terapia para paliar la neuroinflamación producida por el etanol, hemos usado el BDMC, un curcuminoide con capacidad antiinflamatoria y antioxidante, para revertir los daños causados por el abuso del alcohol. Para su administración proponemos su conjugación con un polipéptido que elimina los tradicionales problemas asociados al uso de estos compuestos naturales como son su vida media corta y su baja biodisponibilidad, sin que hayamos registrado toxicidad. El uso de este polímero en animales con un consumo crónico de etanol produce una disminución de la inflamación, tanto a nivel proteico como de expresión génica. Considerando que otra de las regiones del organismo más afectadas por el alcohol es el tracto gastrointestinal, y que la población bacteriana puede ser modificada en determinadas enfermedades o por el uso de sustancias nocivas, produciendo una disbiosis, hemos comparado el efecto del alcohol sobre la población bacteriana y la participación del receptor TLR4 en estos efectos. Mediante análisis de expresión génica, confirmamos que el tejido intestinal ausente del receptor TLR4 es menos susceptible de sufrir cambios debidos al consumo de alcohol. Sin embargo, no hemos encontrado en estos animales la expresión aumentada de genes proinflamatorios característica de los tratamientos alcohólicos. Además, los ratones carentes de este receptor presentan una microbiota intestinal única y diferente a la encontrada en animales de genotipo normal, con sus propios cambios en el equilibrio bacteriano en respuesta a la ingesta de alcohol. Esta microbiota presenta menor cantidad de especies Gram - y mayor resistencia al desequilibrio ocasionado por el alcohol, que su contraparte en los ratones WT. En general, los resultados científicos que aparecen en esta tesis resaltan el papel del TLR4 en las alteraciones causadas por el consumo crónico de alcohol. Mostramos como cambios causados por el etanol a niveles tan distintos como la regulación mediante miARNs o la microbiota intestinal dependen en gran medida de la respuesta inicial que causa el alcohol en el TLR4. Dado que es un receptor necesario para el correcto funcionamiento de muchos órganos, planteamos un posible tratamiento mediante la inhibición de esta cascada inflamatoria. / [CA] L'alcohol és una de les drogues més acceptades i consumides a nivell mundial, i la seva ingesta crònica causa alteracions al sistema nerviós central, des de desmielinització fins a mort neural. S'ha demostrat que gran part d'aquests efectes estarien intervinguts per l'activació del sistema immune innat, principalment a través del receptor TLR4, que desemboca en un estat inflamatori. Per aprofundir en aquests mecanismes, en aquesta tesi es pretén analitzar si el consum crònic d'etanol pot causar modificacions als miARNs de l'escorça cerebral, regulant l'expressió de gens proinflamatoris associats a la ruta de senyalització del TLR4 i si l'ús de la curcumina com a teràpia és capaç de disminuir aquests efectes. A més, analitzarem si el consum d'alcohol a llarg termini és capaç d'alterar la microbiota intestinal i la implicació del TLR4 en aquests processos. Els nostres resultats demostren que l'etanol pot alterar l'expressió de diferents microARNs que regulen l'expressió de gens proinflamatoris i associats a la via del TLR4. L'absència del receptor causa un perfil d'expressió diferent tant als controls com als animals alcohòlics crònics. Com que els darrers anys ens hem interessat en trobar una possible teràpia per pal·liar la neuroinflamació produïda per l'etanol, hem utilizat el BDMC, un curcuminoide amb capacitat antiinflamatòria i antioxidant, per revertir els danys causats per l'abús de l'alcohol. Per a la seva administració proposem la seva conjugació amb un polipèptid que elimina els problemes tradicionals associats a l'ús d'aquests compostos naturals com són la seva vida mitjana curta i la seva baixa biodisponibilitat, sense que haguem registrat toxicitat. L¿ús d¿aquest polímer en animals amb un consum crònic d¿etanol produeix una disminució de la inflamació, tant a nivell proteic com d¿expressió gènica. Considerant que una altra de les regions de l'organisme més afectades per l'alcohol és el tracte gastrointestinal, i que la població bacteriana pot ser modificada en determinades malalties o per l'ús de substàncies nocives, produint una disbiosi, hem comparat l'efecte de l'alcohol sobre la població bacteriana i la participació del receptor TLR4 en aquests efectes. Mitjançant una anàlisi d'expressió gènica, confirmem que el teixit intestinal absent del receptor TLR4 és menys susceptible de patir canvis deguts al consum d'alcohol. Tot i això, no hem trobat en aquests animals l'expressió augmentada de gens proinflamatoris característica dels tractaments alcohòlics. A més, els ratolins sense aquest receptor presenten una microbiota intestinal única i diferent de la trobada en animals de genotip normal, amb els seus propis canvis en l'equilibri bacterià en resposta a la ingesta d'alcohol. Aquesta microbiota presenta menor quantitat d'espècies Gram - i més resistència al desequilibri ocasionat per l'alcohol, que la contrapart en els ratolins WT. En general, els resultats científics que apareixen en aquesta tesi ressalten el paper del TLR4 a les alteracions causades pel consum crònic d'alcohol. Mostrem com a canvis causats per l'etanol a nivells tan diferents com la regulació mitjançant miARNs o la microbiota intestinal depenen en gran mesura de la resposta inicial que causa l'alcohol al TLR4. Atès que és un receptor necessari per al funcionament correcte de molts òrgans, plantegem un possible tractament mitjançant la inhibició d'aquesta cascada inflamatòria. / [EN] Alcohol is one of the most accepted and consumed drugs worldwide, and its chronic consumption causes alterations in the central nervous system, such as demyelination and neural death. It has been shown that these effects would be mediated by the activation of the innate immune system, mainly through the TLR4 receptor, which leads to an inflammatory response. To inquire into these mechanisms, this thesis aims to analyse whether chronic ethanol consumption can cause changes in miRNAs in the cerebral cortex, regulating the expression of proinflammatory genes associated with the TLR4 signalling pathway, and whether the use of curcumin as a therapy it is able to reduce these effects. In addition, we will analyse if long-term alcohol consumption can alter the intestinal microbiota, and the involvement of TLR4 in these processes. Our results show that ethanol can alter the expression of different microRNAs that regulate the expression of proinflammatory genes associated with the TLR4 pathway. The absence of this receptor causes a different expression profile in both controls and chronic alcoholic animals. Taking into account our interest in seeking a possible therapy to alleviate the neuroinflammation caused by ethanol, we have used BDMC, a curcuminoid with anti-inflammatory and antioxidant activity, to ameliorate the damage caused by alcohol abuse. For its administration, we propose its conjugation with a polypeptide that eliminates the traditional problems associated with the use of these natural compounds, such as their short half-life and low bioavailability, with no toxicity recorded. The use of this polymer in animals with chronic ethanol consumption produces a decrease in inflammation, at both protein level and gene expression. Considering that another of the regions of the body most affected by alcohol is the gastrointestinal tract, and that bacterial population can be modified in certain diseases or due to harmful substances, producing dysbiosis, we have compared the effect of alcohol on the bacterial population and the participation of the TLR4 receptor in these effects. Using gene expression analysis, we confirm that intestinal tissue without TLR4 receptor show less changes induced by the alcohol consumption. However, we have not found in these animals an increased expression of proinflammatory genes which are observed in alcoholic treatments. In addition, mice lacking this receptor have a unique intestinal microbiota, which is different from the normal genotype animals, with their own changes in bacterial balance in response to alcohol intake. This microbiota has less Gram - species and greater resistance to imbalance caused by alcohol than its counterpart in WT mice. In general, the results of this thesis highlight the role of TLR4 in the alterations caused by chronic alcohol consumption. We show that ethanol can cause changes at different levels, such as regulation of miRNAs or intestinal microbiota, which largely depend on the TLR4 activation induced by ethanol. Therefore, herein we demonstrate the importance of the TLR4 to the correct activity of several body organs, and we propose a possible treatment by inhibiting its inflammatory cascade. / Cuesta Díaz, CM. (2022). Papel de los receptores TLR4 y de la microbiota intestinal en los procesos inflamatorios y neuroinflamatorios causados por el consumo crónico de alcohol, y posibles terapias con curcuminoides [Tesis doctoral]. Universitat Politècnica de València. https://doi.org/10.4995/Thesis/10251/183832

La scoliose idiopathique de l'adolescent (SIA) est une déformation tridimensionnelle de la colonne vertébrale qui se développe entre l’âge de 10 et 18 ans et dont la cause est inconnue. Cette maladie touche 2-3 % des adolescents et majoritairement les jeunes filles. Certaines études ont révélé des différences au niveau des paramètres anthropométriques chez les jeunes filles atteintes de la SIA par rapport à des sujets contrôles du même âge, tels qu’un poids, un indice de masse corporelle (IMC) et une densité minérale osseuse (DMO) plus faibles. Les raisons de ces différences demeurent inexpliquées, mais des anomalies au niveau du métabolisme énergétique pourraient y contribuer. En ce sens, certaines hormones impliquées dans le métabolisme énergétique ont été sommairement étudiées dans la SIA, mais cela de manière individuelle alors que ces processus nécessitent l'interaction d'une panoplie d'autres hormones. L’hypothèse centrale de cette thèse est que le métabolisme énergétique est altéré dans la SIA. Les objectifs de nos travaux sont de : (1) Étudier l’association entre la mutation A316T du gène du récepteur de l’incrétine glucagon-like peptide 1 (GLP1-R A316T) et la SIA; (2) Dans des ostéoblastes de patients atteints de la SIA et de contrôles, examiner la régulation de protéines impliquées dans le métabolisme énergétique à l’état basal et suite à des traitements par des effecteurs métaboliques; (3) Étudier le profil métabolique des jeunes filles atteintes de la SIA comparativement à des contrôles du même âge; (4) Étudier la composition et la diversité du microbiote intestinal ainsi que ses métabolites dans la SIA et les comparer à des contrôles. Pour ce faire, nous avons génotypé la mutation GLP1R A316T chez des patients avec SIA et des contrôles. Ensuite, des ostéoblastes ont été incubés avec divers effecteurs métaboliques pour étudier leurs effets sur l’expression de protéines impliquées dans le métabolisme énergétique. Aussi, une étude clinique pilote a été réalisée auprès de 20 patientes adolescentes avec la SIA et 20 contrôles appariées pour l’âge. Nous avons évalué le profil métabolique et anthropométrique des participantes, ainsi que leur alimentation et leur niveau d’activité physique. Un échantillon de selle a également été collecté sur une base volontaire afin d’étudier le microbiote intestinal des patientes et des contrôles. Pour l’étude génétique, dans notre cohorte, la présence de la mutation GLP1R A316T augmentait de 3,4 fois le risque de développer la maladie. Au niveau cellulaire, les ostéoblastes dérivés de patients avec SIA présentaient une expression génique et protéique de la dipeptidyl peptidase-4 (DPP-4) inférieure à celle des contrôles. De plus, les traitements avec les effecteurs métaboliques n’ont pas régulé l’expression de la DPP-4 de la même manière dans les ostéoblastes de sujets avec SIA que dans ceux des contrôles. L’étude clinique pilote a montré que les patientes atteintes de la SIA avaient des niveaux moyens d’adiponectine supérieurs aux contrôles, et un ratio leptine/adiponectine inférieur. De plus, les participantes qui avaient un angle de Cobb supérieur à 25° présentaient des taux plus élevés de résistine comparativement aux contrôles. L’étude du microbiote intestinal a révélé des tendances, telles qu’une plus faible alpha-diversité et abondance relative de Lachnospira et de Bacteroides, ainsi qu’une plus grande abondance relative de Blautia dans le groupe avec SIA. En conclusion, les résultats de nos études génétique, cellulaire et clinique démontrent la présence d’altérations du métabolisme énergétique dans la SIA. Ces travaux soutiennent que les mécanismes possibles peuvent inclurent la mutation d’un gène impliqué dans le métabolisme énergétique, une régulation différente des adipokines et des incrétines ainsi que différentes réponses à des effecteurs métaboliques et une altération du microbiote intestinal et de ses métabolites. / Adolescent idiopathic scoliosis (AIS) is a three-dimensional deformity of the spine that develops between the ages of 10 and 18, the cause of which is unknown. The disease affects 2-3% of adolescents, mostly girls. Some studies have revealed differences in anthropometric parameters in girls with AIS compared to control subjects of the same age, such as lower weight, body mass index (BMI) and bone mineral density (BMD). The reasons for these differences remain unexplained, but abnormalities in energy metabolism may contribute. In this regard, certain hormones involved in energy metabolism have been briefly studied in SIA, but only individually, whereas these processes require the interaction of a panoply of other hormones. The central hypothesis of this thesis is that energy metabolism is altered in AIS. The aims of our work are to: (1) Investigate the association between the A316T mutation in the incretin glucagon-like peptide 1 receptor gene (GLP1-R A316T) and AIS; (2) In osteoblasts from AIS patients and controls, examine the regulation of proteins involved in energy metabolism in the basal state and following treatment with metabolic effectors; (3) To study the metabolic profile of girls with AIS compared with controls of the same age; (4) To study the composition and diversity of the intestinal microbiota and its metabolites in AIS and compare them with controls. To this end, we genotyped the GLP1R A316T mutation in AIS patients and controls. Then, osteoblasts were incubated with various metabolic effectors to study their effects on the expression of proteins involved in energy metabolism. Also, a clinical pilot study was carried out in 20 adolescent female patients with AIS and 20 age-matched controls. We assessed the participants' metabolic and anthropometric profile, as well as their diet and level of physical activity. A stool sample was also collected on a voluntary basis to study the intestinal microbiota of patients and controls. For the genetic study, in our cohort, the presence of the GLP1R A316T mutation increased the risk of developing the disease by 3.4-fold. At the cellular level, osteoblasts derived from patients with AIS showed lower gene and protein expression of dipeptidyl peptidase-4 (DPP-4) than controls. Furthermore, treatments with metabolic effectors did not regulate DPP-4 expression in the same way in osteoblasts from subjects with AIS as in controls. The clinical pilot study showed that AIS patients had higher mean adiponectin levels than controls, and a lower leptin/adiponectin ratio. In addition, participants with a Cobb angle greater than 25° had higher levels of resistin compared with controls. Study of the intestinal microbiota revealed trends such as lower alpha-diversity and relative abundance of Lachnospira and Bacteroides, and greater relative abundance of Blautia in the AIS group. In conclusion, the results of our genetic, cellular, and clinical studies support the presence of alterations in energy metabolism in AIS. Possible mechanisms may include mutation of a gene involved in energy metabolism, different regulation of adipokines and incretins, different responses to metabolic effectors, and alteration of the gut microbiota and its metabolites.