225 results on '"Fenaille F"'
Search Results
2. POS0187 INTERMITTENT FASTING AND SPERMIDINE REDUCE INFLAMMATION INDUCED BY MONOSODIUM URATE (MSU) AND CALCIUM PYROPHOSPHATE DIHYDRATE (CPPD) CRYSTALS
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Ea, H. K., primary, Pham, N., additional, Finet, F., additional, Chirayath, T. W., additional, Castelli, F., additional, Fenaille, F., additional, Brial, F., additional, Latourte, A., additional, Lioté, F., additional, Richette, P., additional, and Bardin, T., additional
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- 2024
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3. La métabolomique du globule rouge identifie l’ergothionéine comme marqueur de la polyarthrite rhumatoïde et de sa réponse au méthotrexate
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Sigaux, J., primary, Junot, C., additional, Boissier, M.C., additional, Petit, M., additional, Breckler, M., additional, Castelli, F., additional, Fenaille, F., additional, and Roméo, P.H., additional
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- 2023
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4. Le jeûne intermittent et la spermidine réduisent l’inflammation induite par les cristaux d’urate monosodique (UMS) et de pyrophosphate de calcium (PPC)
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Pham, C.N., primary, Finet, F., additional, Chirayah, T.W., additional, Castelli, F., additional, Fenaille, F., additional, Brial, F., additional, Latourte, A., additional, Lioté, F., additional, Richette, P., additional, Bardin, T., additional, and Ea, H.K., additional
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- 2023
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5. Associations entre expositions environnementales et modifications métabolomiques
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Darras Hostens, M., Dauchet, L., Dallongeville, J., Pilinski, M, Chollet, C., Fenaille, F., Castelli, F., Frainay, C., and Jourdan, F.
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- 2024
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6. POS0510 INTERMITTENT FASTING REDUCES CRYSTAL-INDUCED INFLAMMATION
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Pham, N., primary, Chirayath, T. W., additional, Castelli, F., additional, Fenaille, F., additional, Nguyen, A. L., additional, Brial, F., additional, Latourte, A., additional, Lioté, F., additional, Richette, P., additional, Bardin, T., additional, and Ea, H. K., additional
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- 2023
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7. Analyse du métabolome pulmonaire chez les enfants asthmatiques sévères
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Briard, M., primary, Guillon, B., additional, Venot, E., additional, Fenaille, F., additional, Castellli, F., additional, Lezmi, G., additional, Leite-De-Moraes, M., additional, Saint-Criq, V., additional, and Adel-Patient, K., additional
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- 2023
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8. Le jeûne intermittent réduit l’inflammation microcristalline
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Pham, C.N., primary, Chirayath, T.W., additional, Castelli, F., additional, Fenaille, F., additional, Latourte, A., additional, Lioté, F., additional, Richette, P., additional, Bardin, T., additional, and Ea, H.K., additional
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- 2022
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9. Innovative porous materials for enhanced glycomic analysis
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Maleval, M, Ferry, D, Cholet, S, Andasse, C, Mayne-l'Hermite, M, Fenaille, F, Mugherli, L, Laboratoire Edifices Nanométriques (LEDNA), Nanosciences et Innovation pour les Matériaux, la Biomédecine et l'Energie (ex SIS2M) (NIMBE UMR 3685), Institut Rayonnement Matière de Saclay (IRAMIS), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Institut Rayonnement Matière de Saclay (IRAMIS), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Centre Interdisciplinaire de Nanoscience de Marseille (CINaM), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Médicaments et Technologies pour la Santé (MTS), Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Laboratoire d'Etude du Comportement des Bétons et des Argiles (LECBA), Service d'Etudes du Comportement des Radionucléides (SECR), Département de Physico-Chimie (DPC), CEA-Direction des Energies (ex-Direction de l'Energie Nucléaire) (CEA-DES (ex-DEN)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-CEA-Direction des Energies (ex-Direction de l'Energie Nucléaire) (CEA-DES (ex-DEN)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Département de Physico-Chimie (DPC), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay, and Palacin, Serge
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[CHIM.MATE] Chemical Sciences/Material chemistry ,[CHIM.MATE]Chemical Sciences/Material chemistry - Abstract
International audience; Hierarchical porosity sol-gel monoliths (HPMs) are of increasing interest for a wide variety of applications due to their outstanding microstructural (homogenous) and textural properties (high porosity and specific surface area) [1]. The high flow rate and low-pressure resultant compared to conventional materials, makes them suited for extraction and enrichment of analytes of interest in analytical techniques (HPLC, SPE, etc.) [2–4]. However, pure inorganic materials have rarely been considered for relevant applications in various omics fields such as metabolomics or proteomics [5].In the context, we report on: (i) a pure silica HPM based on a finely tuned bimodal porosity thoroughly controlled, (ii) coupled to a new way to a miniaturize shaping (iii) and its use as an innovative tool for sample preparation prior to glycan analysis by mass spectrometry, as a new source of disease biomarkers (glycomics analysis). The monolith synthesis will be presented with a special emphasize on its robustness and on the modulations of the bimodal porosity obtained ([0.1–5] μm and [1-25] nm). Beside microstructural and textural properties measurements (SEM, Hg porosimetry, etc.), the transport of small molecules through mesoporous network were evaluated by TEM tomography. Finally, the material was processed in different shapes and size (50 μm – 4 mm in diameter) demonstrating a high flexibility of our approach to produce devices dedicated to a biological analysis. The use of HPM for the analysis of both free and protein-bound oligosaccharides present in precious samples (human blood and milk) and their detection by MALDI-TOF mass spectrometry will be presented as a proof of concept. Optimized experimental conditions, as well as material textures and shapes, enabled straightforward and time-efficient purification and MS- based glycomics analysis using minute quantities (few μl) of solvents but above all of complex human biofluids, thus outperforming common laboratory protocols.
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- 2022
10. Blood metabolomics uncovers inflammation-associated mitochondrial dysfunction as a potential mechanism underlying ACLF (vol 72, pg 688, 2020)
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Moreau, R, Claria, J, Aguilar, F, Fenaille, F, Lozano, JJ, Junot, C, Colsch, B, Caraceni, P, Trebicka, J, Pavesi, M, Alessandria, C, Nevens, F, Saliba, F, Welzel, TM, Albillos, A, Gustot, T, Fernandez, J, Moreno, C, Baldassarre, M, Zaccherini, G, Piano, S, Montagnese, S, Vargas, V, Genesca, J, Sola, E, Bernal, W, Butin, N, Hautbergue, T, Cholet, S, Castelli, F, Jansen, C, Steib, C, Campion, D, Mookerjee, R, Rodriguez-Gandia, M, Soriano, G, Durand, F, Benten, D, Banares, R, Stauber, RE, Gronbaek, H, Coenraad, MJ, Gines, P, Gerbes, A, Jalan, R, Bernardi, M, Arroyo, V, Angeli, P, CANONIC Study, and Grifols Chair European
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- 2020
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11. Effect of cocoa rich in procyanidins chronic consumption in plasma and fecal metabolome after a session of acute exercise
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Tabone, Mariangela, García Merino, José Ángel, Moreno Pérez, Diego, Castelli, F., Fenaille, F., and Larrosa Pérez, Mar
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Metabolismo ,Nutrición ,Fenómenos fisiológicos en la nutrición deportiva ,food and beverages ,Metabolismo energético ,Deporte - Abstract
INTRODUCCIÓN The performance of strenuous or vigorous exercise leads to health benefits but also produces an increase in oxidative stress, production of inflammatory cytokines, muscle damage and increased of intestinal permeability. Cocoa is a good dietary supplement because is a great source of antioxidant and anti-inflammatory compounds that also increases those bacterial populations that reinforce the intestinal wall. OBJETIVOS The objective of this work was to study the effect of the chronic consumption of cocoa in the plasma and fecal metabolome after a session of acute exercise in resistance athletes. MÉTODOS An intervention study was carried out on 40 resistance athletes that were divided into 2 groups (n = 20 per group). At the beginning of the study, subjects underwent an acute exercise session after which they were supplemented with 5 grams of cocoa or placebo (maltodextrin) per day for 10 weeks. Blood samples were taken before and immediately after the acute exercise session at the beginning and after 10 weeks of intervention. For the stool samples, the samples were collected before and after the exercise session. The metabolome of the plasma samples and faeces were analysed using an Ultra high performance liquid chromatography (UHPLC) coupled with high resolution Mass Spectrometry (MS). RESULTADOS The results obtained revealed significant changes in both serum and fecal metabolome in athletes that have consumed cocoa compared with the control. In serum were found 29 significant metabolites while in fecal samples were found 28 significant metabolites. Among the many metabolic pathways affected, we found a significant change in the metabolism of amino acids, urea cycle, creatinine and particularly in the metabolism of tryptophan. In fact, we detected an increase of serotonin and its breakdown metabolite 5-methoxyindoleacetate, suggesting that cocoa consumption increase the uptake of tryptophan in the Central Nervous System (CNS) and its conversion to serotonin within the CNS during the performance of vigorous acute exercise. CONCLUSIONES Our results show that chronic cocoa consumption may be modifying the availability of tryptophan at the central nervous system level and its conversion to 5-methoxyindoleacetate. These changes may be related to the influence of the serotonergic system on the fatigue associated with physical exercise. Sin financiación No data JCR 2019 0.180 SJR (2019) Q3, 2033/2754 Medicine (miscellaneous) No data IDR 2019 UEM
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- 2020
12. Synthesis, tandem MS- and NMR-based characterization, and quantification of the carbon 13-labeled advanced glycation endproduct, 6-N-carboxymethyllysine
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Delatour, T., Fenaille, F., Parisod, V., Arce Vera, F., and Buetler, T.
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- 2006
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13. A European proposal for quality control and quality assurance of tandem mass spectral libraries
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Oberacher, H., Sasse, M., Antignac, J.-P., Guitton, Y., Debrauwer, L., Jamin, E.L., Schulze, Tobias, Krauss, Martin, Covaci, A., Caballero‑Casero, N., Rousseau, K., Damont, A., Fenaille, F., Lamoree, M., Schymanski, E.L., Oberacher, H., Sasse, M., Antignac, J.-P., Guitton, Y., Debrauwer, L., Jamin, E.L., Schulze, Tobias, Krauss, Martin, Covaci, A., Caballero‑Casero, N., Rousseau, K., Damont, A., Fenaille, F., Lamoree, M., and Schymanski, E.L.
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BackgroundHigh resolution mass spectrometry (HRMS) is being used increasingly in the context of suspect and non-targeted screening for the identification of bioorganic molecules. There is correspondingly increasing awareness that higher confidence identification will require a systematic, group effort to increase the fraction of compounds with tandem mass spectra available in central, publicly available resources. While typical suspect screening efforts will only result in tentative annotations with a moderate level of confidence, library spectral matches will yield higher confidence or even full confirmation of the identity if the reference standards are available.ResultsThis article first explores representative percent coverage of measured tandem mass spectra in selected major environmental suspect databases of interest in the context of human biomonitoring, demonstrating the current extensive gap between the number of potential substances of interest (up to hundreds of thousands) and measured spectra (0.57–3.6% of the total chemicals have spectral information available). Furthermore, certain datasets are benchmarked, based on previous efforts, to show the extent to which acquired experimental data were comparable between laboratories, even with HRMS instruments based on different technologies (i.e., quadrupole–quadrupole-time of flight versus ion trap/quadrupole-Orbitrap). Instruments and settings that are less comparable are also revealed, primarily linear ion trap instruments, which show distinctly lower comparability.ConclusionsBased on these efforts, harmonization guidelines for the acquisition and processing of tandem mass spectrometry data are proposed to enable European (and ideally worldwide) laboratories to contribute to common resources, without requiring extensive changes to their current in house methods.
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- 2020
14. Suspect and non-targeted screening of chemicals of emerging concern for human biomonitoring, environmental health studies and support to risk assessment: From promises to challenges and harmonisation issues
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Pourchet, M., Debrauwer, L., Klanova, J., Price, E.J., Covaci, A., Caballero‑Casero, N., Oberacher, H., Lamoree, M., Damont, A., Fenaille, F., Vlaanderen, J., Meijer, J., Krauss, Martin, Sarigiannis, D., Barouki, R., Le Bizec, B., Antignac, J.-P., Pourchet, M., Debrauwer, L., Klanova, J., Price, E.J., Covaci, A., Caballero‑Casero, N., Oberacher, H., Lamoree, M., Damont, A., Fenaille, F., Vlaanderen, J., Meijer, J., Krauss, Martin, Sarigiannis, D., Barouki, R., Le Bizec, B., and Antignac, J.-P.
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Large-scale suspect and non-targeted screening approaches based on high-resolution mass spectrometry (HRMS) are today available for chemical profiling and holistic characterisation of biological samples. These advanced techniques allow the simultaneous detection of a large number of chemical features, including markers of human chemical exposure. Such markers are of interest for biomonitoring, environmental health studies and support to risk assessment. Furthermore, these screening approaches have the promising capability to detect chemicals of emerging concern (CECs), document the extent of human chemical exposure, generate new research hypotheses and provide early warning support to policy. Whilst of growing importance in the environment and food safety areas, respectively, CECs remain poorly addressed in the field of human biomonitoring. This shortfall is due to several scientific and methodological reasons, including a global lack of harmonisation. In this context, the main aim of this paper is to present an overview of the basic principles, promises and challenges of suspect and non-targeted screening approaches applied to human samples as this specific field introduce major specificities compared to other fields. Focused on liquid chromatography coupled to HRMS-based data acquisition methods, this overview addresses all steps of these new analytical workflows. Beyond this general picture, the main activities carried out on this topic within the particular framework of the European Human Biomonitoring initiative (project HBM4EU, 2017–2021) are described, with an emphasis on harmonisation measures.
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- 2020
15. Analyse métabolomique du globule rouge dans la polyarthrite rhumatoïde récente avant et après traitement par méthotrexate
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Sigaux, J., primary, Junot, C., additional, Boissier, M.C., additional, Petit, M., additional, Breckler, M., additional, Castelli, F., additional, Fenaille, F., additional, Roméo, P.H., additional, and Semerano, L., additional
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- 2020
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16. Application of mass spectrometry to the characterisation and quantification of pharmaceutical-grade allergens: 117
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Nony, E, Bouley, J, Fenaille, F, Becher, F, Ezan, E, Chabre, H, Lautrette, A, Batard, T, and Moingeon, P
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- 2010
17. Molecular variability of group 1 and 5 grass pollen allergens between Pooideae species: implications for immunotherapy
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Chabre, H., Gouyon, B., Huet, A., Boran-Bodo, V., Nony, E., Hrabina, M., Fenaille, F., Lautrette, A., Bonvalet, M., Maillère, B., Bordas-Le Floch, V., Van Overtvelt, L., Jain, K., Ezan, E., Batard, T., and Moingeon, P.
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- 2010
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18. Molecular variability of group 1 and 5 pollen allergens between pooideae grass species: implications for immunotherapy: 58
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Moingeon, P, Chabre, H, Gouyon, B, Huet, A, Bodo, V, Nony, E, Fenaille, F, Lautrette, A, Maillere, B, Bordas, V, VanOvertvelt, L, Hrabina, M, Jain, K, Ezan, E, and Batard, T
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- 2009
19. Orchestration of Tryptophan-Kynurenine Pathway, Acute Decompensation, and Acute-on-Chronic Liver Failure in Cirrhosis
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Claria, J., Moreau, R., Fenaille, F., Amoros, A., Junot, C., Gronbaek, H., Coenraad, M.J., Pruvost, A., Ghettas, A., Chu-Van, E., Lopez-Vicario, C., Oettl, K., Caraceni, P., Alessandria, C., Trebicka, J., Pavesi, M., Deulofeu, C., Albillos, A., Gustot, T., Welzel, T.M., Fernandez, J., Stauber, R.E., Saliba, F., Butin, N., Colsch, B., Moreno, C., Durand, F., Nevens, F., Banares, R., Benten, D., Gines, P., Gerbes, A., Jalan, R., Angeli, P., Bernardi, M., Arroyo, V., EASL Clif Consortium, Grifols Chair European Fdn Study C, Clària, Joan, Moreau, Richard, Fenaille, Françoi, Amorós, Alex, Junot, Christophe, Gronbaek, Henning, Coenraad, Minneke J, Pruvost, Alain, Ghettas, Aurélie, Chu-Van, Emeline, López-Vicario, Cristina, Oettl, Karl, Caraceni, Paolo, Alessandria, Carlo, Trebicka, Jonel, Pavesi, Marco, Deulofeu, Carme, Albillos, Agustin, Gustot, Thierry, Welzel, Tania M, Fernández, Javier, Stauber, Rudolf E, Saliba, Faouzi, Butin, Noémie, Colsch, Benoit, Moreno, Christophe, Durand, Françoi, Nevens, Frederik, Bañares, Rafael, Benten, Daniel, Ginès, Pere, Gerbes, Alexander, Jalan, Rajiv, Angeli, Paolo, Bernardi, Mauro, Arroyo, Vicente, Grifols Chair, Partenaires INRAE, Institut d'Investigacions Biomèdiques August Pi i Sunyer, Université Paris Diderot - Paris 7 (UPD7), Service de Pharmacologie et d'Immunoanalyse (SPI), Institut National de la Recherche Agronomique (INRA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay, Université Paris Saclay (COmUE), Aarhus University Hospital, Department of Gastroenterology and Hepatology, Leiden University Medical Center (LUMC), Institut National de la Recherche Agronomique (INRA), Medical University Graz, Department of Medical and Surgical Sciences, Universita degli Studi di Padova, San Giovanni Battista Hosp, Div Gastroenterol & Hepatol, Turin, Italy, Rheinische Friedrich-Wilhelms-Universität Bonn, Hospital Universitario, Université libre de Bruxelles (ULB), Goethe-Universität Frankfurt am Main, Hôpital Paul Brousse, Université Paris-Sud - Paris 11 (UP11)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Hôpital Paul Brousse, Université Catholique de Louvain = Catholic University of Louvain (UCL), Universidad Complutense de Madrid = Complutense University of Madrid [Madrid] (UCM), Universitaetsklinikum Hamburg-Eppendorf = University Medical Center Hamburg-Eppendorf [Hamburg] (UKE), Univ Hosp LMU Munich, Liver Ctr Munich, Dept Med 2, Munich, Germany, University College of London [London] (UCL), Universita di Padova, ICREA Academia Award, Service de Pharmacologie et Immunoanalyse (SPI), Médicaments et Technologies pour la Santé (MTS), Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Universiteit Leiden-Universiteit Leiden, and Università degli Studi di Padova = University of Padua (Unipd)
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Liver Cirrhosis ,Male ,0301 basic medicine ,Cirrhosis ,Kynurenine pathway ,[SDV]Life Sciences [q-bio] ,medicine.medical_treatment ,severity ,Decompensated cirrhosis ,Systemic inflammation ,Gastroenterology ,Tryptophan -- blood ,chemistry.chemical_compound ,0302 clinical medicine ,hepatic-encephalopathy ,Prospective Studies ,Renal Insufficiency ,Indoleamine 2,3-dioxygenase ,Hepatic encephalopathy ,Kynurenine ,Liver Cirrhosis -- blood -- complications -- mortality -- physiopathology ,systemic inflammation ,Europe -- epidemiology ,Kynurenine -- blood ,Hepatic Encephalopathy -- blood -- complications ,Tryptophan ,Bacterial Infections -- blood -- complications ,Immunosuppression ,Bacterial Infections ,Sciences bio-médicales et agricoles ,Middle Aged ,Acute-On-Chronic Liver Failure -- blood -- etiology ,metabolomics ,3. Good health ,Europe ,chromatography ,Female ,030211 gastroenterology & hepatology ,medicine.symptom ,metabolomic ,medicine.medical_specialty ,indoleamine 2,3-dioxygenase ,Decompensated cirrhosi ,03 medical and health sciences ,Internal medicine ,medicine ,Humans ,organ failure ,Decompensation ,plasma ,Aged ,Inflammation ,Inflammation -- blood -- complications ,Renal Insufficiency -- blood -- complications ,Hepatology ,business.industry ,Acute-On-Chronic Liver Failure ,blockade ,medicine.disease ,mortality ,kynurenine ,030104 developmental biology ,chemistry ,Case-Control Studies ,Hepatic Encephalopathy ,business ,metabolism - Abstract
Systemic inflammation (SI) is involved in the pathogenesis of acute decompensation (AD) and acute-on-chronic liver failure (ACLF) in cirrhosis. In other diseases, SI activates tryptophan (Trp) degradation through the kynurenine pathway (KP), giving rise to metabolites that contribute to multiorgan/system damage and immunosuppression. In the current study, we aimed to characterize the KP in patients with cirrhosis, in whom this pathway is poorly known. The serum levels of Trp, key KP metabolites (kynurenine and kynurenic and quinolinic acids), and cytokines (SI markers) were measured at enrollment in 40 healthy subjects, 39 patients with compensated cirrhosis, 342 with AD (no ACLF) and 180 with ACLF, and repeated in 258 patients during the 28-day follow-up. Urine KP metabolites were measured in 50 patients with ACLF. Serum KP activity was normal in compensated cirrhosis, increased in AD and further increased in ACLF, in parallel with SI; it was remarkably higher in ACLF with kidney failure than in ACLF without kidney failure in the absence of differences in urine KP activity and fractional excretion of KP metabolites. The short-term course of AD and ACLF (worsening, improvement, stable) correlated closely with follow-up changes in serum KP activity. Among patients with AD at enrollment, those with the highest baseline KP activity developed ACLF during follow-up. Among patients who had ACLF at enrollment, those with immune suppression and the highest KP activity, both at baseline, developed nosocomial infections during follow-up. Finally, higher baseline KP activity independently predicted mortality in patients with AD and ACLF. Conclusion: Features of KP activation appear in patients with AD, culminate in patients with ACLF, and may be involved in the pathogenesis of ACLF, clinical course, and mortality., info:eu-repo/semantics/published
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- 2019
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20. Mass spectral databases for metabolomics: How to build a consistently annotated mass spectral database from pure reference compounds analyzed under electrospray ionization conditions?
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Damont, A., Olivier, M. F., Warnet, A., Lyan, Bernard, Pujos-Guillot, Estelle, Jamin, Emilien, Debrauwer, Laurent, Bernillon, Stéphane, Junot, C., Tabet, J. C., Fenaille, F., Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), MetaboHUB, Université Paris Saclay (COmUE), Institut National de la Recherche Agronomique (INRA), Service de Pharmacologie et Immunoanalyse (SPI), Médicaments et Technologies pour la Santé (MTS), Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Unité de Nutrition Humaine - Clermont Auvergne (UNH), Institut National de la Recherche Agronomique (INRA)-Université Clermont Auvergne (UCA), Plateforme d'Exploration du Métabolisme, ToxAlim (ToxAlim), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Ecole Nationale Vétérinaire de Toulouse (ENVT), Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Ecole d'Ingénieurs de Purpan (INPT - EI Purpan), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Recherche Agronomique (INRA), Analytical Platform for Metabolomics and Toxicology (MetaToul-AXIOM), Biologie du fruit et pathologie (BFP), Université Sciences et Technologies - Bordeaux 1-Institut National de la Recherche Agronomique (INRA)-Université Bordeaux Segalen - Bordeaux 2, Institut Parisien de Chimie Moléculaire (IPCM), Centre National de la Recherche Scientifique (CNRS), Sorbonne Université (SU), and Université Bordeaux Segalen - Bordeaux 2-Institut National de la Recherche Agronomique (INRA)-Université Sciences et Technologies - Bordeaux 1
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High-resolution mass spectrometry ,[CHIM.ANAL]Chemical Sciences/Analytical chemistry ,Annotation ,Mass spectra ,Metabolomics ,MS databases - Abstract
Epub ahead of print; Nowadays, high-resolution mass spectrometry is widely used for metabolomic studies. Thanks to its high sensitivity, it enables the detection of a large range of metabolites. In metabolomics, the continuous quest for a metabolite identification as complete and accurate as possible has led during the last decade to an ever increasing development of public MS databases (including LC-MS data) concomitantly with bioinformatic tool expansion. To facilitate the annotation process of MS profiles obtained from biological samples, but also to ease data sharing, exchange and exploitation, the standardization and harmonization of the way to describe and annotate mass spectra seemed crucial to us. Indeed, under electrospray (ESI) conditions, a single metabolite does not produce a unique ion corresponding to its protonated or deprotonated form but could lead to a complex mixture of signals. These MS signals result from the existence of different natural isotopologues of the same compound and also to the potential formation of adduct ions, homo and hetero-multimeric ions, fragment ions resulting from "prompt" in-source dissociations. As a joint reflection process within the French Infrastructure for Metabolomics and Fluxomics (MetaboHUB) and with the purpose of developing a robust and exchangeable annotated MS database made from pure reference compounds (chemical standards) analysis, it appeared to us that giving the metabolomics community some clues to standardize and unambiguously annotate each MS feature, was a prerequisite to data entry and further efficient querying of the database. The use of a harmonized notation is also mandatory for inter-laboratory MS data exchange. Additionally, thorough description of the variety of MS signals arising from the analysis of a unique metabolite might provide greater confidence on its annotation.
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- 2019
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21. Développement de matériaux poreux hybrides innovants pour l'analyse glycomique
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Maleval, M, Mayne-L'Hermite, M., Fenaille, F, Mugherli, L, Palacin, Serge, Laboratoire Edifices Nanométriques (LEDNA), Nanosciences et Innovation pour les Matériaux, la Biomédecine et l'Energie (ex SIS2M) (NIMBE UMR 3685), Institut Rayonnement Matière de Saclay (IRAMIS), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Institut Rayonnement Matière de Saclay (IRAMIS), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Service de Pharmacologie et Immunoanalyse (SPI), Médicaments et Technologies pour la Santé (MTS), Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie du CNRS (INC)-Institut Rayonnement Matière de Saclay (IRAMIS), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie du CNRS (INC), Service de Pharmacologie et d'Immunoanalyse (SPI), and Institut National de la Recherche Agronomique (INRA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay
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[CHIM.MATE] Chemical Sciences/Material chemistry ,[CHIM.MATE]Chemical Sciences/Material chemistry - Abstract
International audience; L'analyse glycomique consiste à établir le profil des oligosaccharides présents sur l'ensemble des glycoprotéines d'un fluide biologique d'intérêt (ex : plasma) . Cependant, la préparation des échantillons implique de nombreuses étapes souvent manuelles, très chronophages et peu compatibles avec l'analyse à haut débit des échantillons. Les matériaux préparés selon le procédé sol-gel, par leur grande adaptabilité en terme de porosité et de propriétés physico-chimiques, ont montré qu'ils pouvaient être utilisés pour une grande variété d'applications tels que la détection (capteurs) ou la capture de molécules d'intérêt , notamment dans le domaine biomédical. Dans cette optique, nous développons des matériaux à porosité bimodale pour faciliter et accélérer la préparation des échantillons dédiés à l'analyse glycomique. Les premiers résultats obtenus seront présentés, en particulier le procédé de synthèse, les modulations possibles des matériaux (microstructure et porosité) ainsi que la caractérisation de leurs propriétés texturales et microstructurales. Enfin, quelques résultats prometteurs obtenus à l'aide de ces matériaux sur des échantillons biologiquement pertinents seront également présentés.
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- 2019
22. Étude longitudinale du métabolome de Pseudomonas aeruginosa au cours des infections pulmonaires chroniques dans la mucoviscidose
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Moyne, O, Cournoyer, B, Castelli, F, Fenaille, F, Lamourette, P, Junot, C, Léger, Christophe, Bicout, D., Maurin, M, Toussaint, B, Le Gouëllec, A, Thérapeutique Recombinante Expérimentale (TIMC-IMAG-TheREx), Techniques de l'Ingénierie Médicale et de la Complexité - Informatique, Mathématiques et Applications, Grenoble - UMR 5525 (TIMC-IMAG), Institut polytechnique de Grenoble - Grenoble Institute of Technology (Grenoble INP )-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019])-Institut polytechnique de Grenoble - Grenoble Institute of Technology (Grenoble INP )-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019]), Environnement et Prédiction de la Santé des Populations (TIMC-IMAG-EPSP), Institut polytechnique de Grenoble - Grenoble Institute of Technology (Grenoble INP )-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019]), Centre Hospitalier Universitaire [Grenoble] (CHU), and ZOPPIS, Catherine
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[SDV] Life Sciences [q-bio] ,[SDV]Life Sciences [q-bio] ,ComputingMilieux_MISCELLANEOUS - Abstract
International audience
- Published
- 2017
23. Drug-induced encephalopathy in cirrhotic patients with neurological symptoms: A metabolomic study
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Weiss, N., primary, Hilaire, P.B.S., additional, Schaefer, A., additional, Rudler, M., additional, Mouri, S., additional, Sedel, F., additional, Fenaille, F., additional, Colsch, B., additional, Junot, C., additional, and Thabut, D., additional
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- 2018
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24. The kynurenine pathway in cirrhosis. Relationship with the development of acute decompensation and acute-on-chronic liver failure, clinical course and mortality
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Clària, J., primary, Moreau, R., additional, Fenaille, F., additional, Amoros, A., additional, Junot, C., additional, Gronbaek, H., additional, Coenraad, M., additional, Oettl, K., additional, Caraceni, P., additional, Alessandria, C., additional, Trebicka, J., additional, Pavesi, M., additional, Gomez, C.D., additional, Albillos, A., additional, Gustot, T., additional, Welzel, T., additional, Fernandez, J., additional, Stauber, R.E., additional, Saliba, F., additional, Butin, N., additional, Colsch, B., additional, Moreno, C., additional, Durand, F., additional, Nevens, F., additional, Bañares, R., additional, Benten, D., additional, Ginès, P., additional, Gerbes, A., additional, Jalan, R., additional, Angeli, P., additional, Bernardi, M., additional, and Arroyo, V., additional
- Published
- 2018
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25. Mass spectrometry for the detection of bioterrorism agents: from environmental to clinical applications
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Duriez, E., primary, Armengaud, J., additional, Fenaille, F., additional, and Ezan, E., additional
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- 2016
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26. SAT-315 - Drug-induced encephalopathy in cirrhotic patients with neurological symptoms: A metabolomic study
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Weiss, N., Hilaire, P.B.S., Schaefer, A., Rudler, M., Mouri, S., Sedel, F., Fenaille, F., Colsch, B., Junot, C., and Thabut, D.
- Published
- 2018
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- View/download PDF
27. LBP-028 - The kynurenine pathway in cirrhosis. Relationship with the development of acute decompensation and acute-on-chronic liver failure, clinical course and mortality
- Author
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Clària, J., Moreau, R., Fenaille, F., Amoros, A., Junot, C., Gronbaek, H., Coenraad, M., Oettl, K., Caraceni, P., Alessandria, C., Trebicka, J., Pavesi, M., Gomez, C.D., Albillos, A., Gustot, T., Welzel, T., Fernandez, J., Stauber, R.E., Saliba, F., Butin, N., Colsch, B., Moreno, C., Durand, F., Nevens, F., Bañares, R., Benten, D., Ginès, P., Gerbes, A., Jalan, R., Angeli, P., Bernardi, M., and Arroyo, V.
- Published
- 2018
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28. INTERMITTENT FASTING REDUCES CRYSTAL-INDUCED INFLAMMATION.
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Pham, N., Chirayath, T. W., Castelli, F., Fenaille, F., Nguyen, A. L., Brial, F., Latourte, A., Lioté, F., Richette, P., Bardin, T., and Ea, H. K.
- Published
- 2023
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- View/download PDF
29. Carbonylation of milk powder proteins as a consequence of processing conditions
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Fenaille, F., Parisod, V., Tabet, J.-C., A. Guy, P., Synthèse, Structure et Fonction de Molécules Bioactives (SSFMB), and Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)
- Published
- 2005
30. Intérêts de la spectrométrie de masse pour l’analyse des allergènes
- Author
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Nony, E., primary, Bouley, J., additional, Le Mignon, M., additional, Brier, S., additional, Becher, F., additional, Fenaille, F., additional, Chabre, H., additional, Berrouet, C., additional, Lautrette, A., additional, Batard, T., additional, and Moingeon, P., additional
- Published
- 2012
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31. Site-specific N-glycan characterization of human complement factor H
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Fenaille, F., primary, Le Mignon, M., additional, Groseil, C., additional, Ramon, C., additional, Riande, S., additional, Siret, L., additional, and Bihoreau, N., additional
- Published
- 2007
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32. Synthesis, tandem MS- and NMR-based characterization, and quantification of the carbon 13-labeled advanced glycation endproduct, 6-N-carboxymethyllysine
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Delatour, T., primary, Fenaille, F., additional, Parisod, V., additional, Arce Vera, F., additional, and Buetler, T., additional
- Published
- 2005
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33. Comparison of analytical techniques to quantify malondialdehyde in milk powders
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Fenaille, F., Mottier, P., Turesky, R. J., Ali, S., and Guy, P. A.
- Published
- 2001
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34. Deacetylation of H4-K16Ac and heterochromatin assembly in senescence
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Contrepois Kévin, Thuret Jean-Yves, Courbeyrette Régis, Fenaille François, and Mann Carl
- Subjects
Genetics ,QH426-470 - Abstract
Abstract Background Cellular senescence is a stress response of mammalian cells leading to a durable arrest of cell proliferation that has been implicated in tumor suppression, wound healing, and aging. The proliferative arrest is mediated by transcriptional repression of genes essential for cell division by the retinoblastoma protein family. This repression is accompanied by varying degrees of heterochromatin assembly, but little is known regarding the molecular mechanisms involved. Results We found that both deacetylation of H4-K16Ac and expression of HMGA1/2 can contribute to DNA compaction during senescence. SIRT2, an NAD-dependent class III histone deacetylase, contributes to H4-K16Ac deacetylation and DNA compaction in human fibroblast cell lines that assemble striking senescence-associated heterochromatin foci (SAHFs). Decreased H4-K16Ac was observed in both replicative and oncogene-induced senescence of these cells. In contrast, this mechanism was inoperative in a fibroblast cell line that did not assemble extensive heterochromatin during senescence. Treatment of senescent cells with trichostatin A, a class I/II histone deacetylase inhibitor, also induced rapid and reversible decondensation of SAHFs. Inhibition of DNA compaction did not significantly affect the stability of the senescent state. Conclusions Variable DNA compaction observed during senescence is explained in part by cell-type specific regulation of H4 deacetylation and HMGA1/2 expression. Deacetylation of H4-K16Ac during senescence may explain reported decreases in this mark during mammalian aging and in cancer cells.
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- 2012
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35. Untargeted lipidomics uncovers lipid signatures that distinguish severe from moderate forms of acutely decompensated cirrhosis
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Maria Vinaixa, Cristina López-Vicario, Vicente Arroyo, Florence Castelli, Jonel Trebicka, Juan José Lozano, Paolo Caraceni, Rajiv Jalan, Ferran Aguilar, Anna Curto, Paolo Angeli, Oscar Yanes, Joan Clària, Ingrid W. Zhang, Benoit Colsch, Christophe Junot, François Fenaille, Richard Moreau, Javier Fernández, Claria J., Curto A., Moreau R., Colsch B., Lopez-Vicario C., Lozano J.J., Aguilar F., Castelli F.A., Fenaille F., Junot C., Zhang I., Vinaixa M., Yanes O., Caraceni P., Trebicka J., Fernandez J., Angeli P., Jalan R., Arroyo V., Médicaments et Technologies pour la Santé (MTS), Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), and Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)
- Subjects
Male ,medicine.medical_specialty ,Cirrhosis ,Fibrosi ,Prognosi ,Systemic inflammation ,Severity of Illness Index ,Gastroenterology ,or-gan failures ,Cohort Studies ,chemistry.chemical_compound ,Internal medicine ,Lipidomics ,medicine ,Humans ,organ failure ,Decompensation ,Aged ,systemic inflammation ,Clinical Deterioration ,Hepatology ,business.industry ,decompensated cirrhosi ,Lipidomic ,Albumin ,[SDV.MHEP.HEG]Life Sciences [q-bio]/Human health and pathology/Hépatology and Gastroenterology ,Lipid ,Middle Aged ,Lipidome ,Prognosis ,medicine.disease ,Lipids ,Fibrosis ,chemistry ,Cohort ,Cholesteryl ester ,Female ,Cohort Studie ,medicine.symptom ,business ,decompensated cirrhosis ,Human - Abstract
Background & Aims: Acute decompensation (AD) of cirrhosis is a heterogeneous clinical entity associated with moderate mortality. In some patients, this condition develops quickly into the more deadly acute-on-chronic liver failure (ACLF), in which other organs such as the kidneys or brain fail. The aim of this study was to characterize the blood lipidome in a large series of patients with cirrhosis and identify specific signatures associated with AD and ACLF development. Methods: Serum untargeted lipidomics was performed in 561 patients with AD (518 without and 43 with ACLF) (discovery cohort) and in 265 patients with AD (128 without and 137 with ACLF) in whom serum samples were available to perform repeated measurements during the 28-day follow-up (validation cohort). Analyses were also performed in 78 patients with AD included in a therapeutic albumin trial (43 patients with compensated cirrhosis and 29 healthy individuals). Results: The circulating lipid landscape associated with cirrhosis was characterized by a generalized suppression, which was more manifest during AD and in non-surviving patients. By computing discriminating accuracy and the variable importance projection score for each of the 223 annotated lipids, we identified a sphingomyelin fingerprint specific for AD of cirrhosis and a distinct cholesteryl ester and lysophosphatidylcholine finger-print for ACLF. Liver dysfunction and infections were the prin-cipal net contributors to these fingerprints, which were dynamic and interchangeable between patients with AD whose condition worsened to ACLF and those who improved. Notably, blood lysophosphatidylcholine levels increased in these patients after albumin therapy. Conclusions: Our findings provide insights into the lipid land-scape associated with decompensation of cirrhosis and ACLF progression and identify unique non-invasive diagnostic bio-markers of advanced cirrhosis. Lay summary: Analysis of lipids in blood from patients with advanced cirrhosis reveals a general suppression of their levels in the circulation of these patients. A specific group of lipids known as sphingomyelins are useful to distinguish between patients with compensated and decompensated cirrhosis. Another group of lipids designated cholesteryl esters further distinguishes patients with decompensated cirrhosis who are at risk of developing organ failures. (c) 2021 The Authors. Published by Elsevier B.V. on behalf of European Association for the Study of the Liver.
- Published
- 2021
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36. Nontargeted urine metabolomic analysis of acute intermittent porphyria reveals novel interactions between bile acids and heme metabolism: New promising biomarkers for the long-term management of patients.
- Author
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Lefebvre T, Eguether T, Thévenot E, Poli A, Chu-Van E, Krasniqi P, Schmitt C, Talbi N, Nicolas G, Puy H, Junot C, Lamazière A, Castelli F, Gouya L, and Fenaille F
- Abstract
Acute intermittent porphyria is an inherited error of heme synthesis. The underlying pathophysiology, involving mainly hepatic heme synthesis, is poorly understood despite its occurrence, and the severity of acute porphyria attack is still difficult to control. A better understanding of the interactions between heme synthesis and global metabolism would improve the management of AIP patients. An untargeted metabolomic analysis was performed on the urine of 114 patients with overt AIP and asymptomatic carriers using liquid chromatography coupled to high-resolution mass spectrometry. The collected data were analyzed by combining univariate and multivariate analyses. A total of 239 metabolites were annotated in urine samples by matching chromatographic and mass spectral characteristics with those from our chemical library. Twenty-six metabolites, including porphyrin precursors, intermediates of tryptophan or glycine metabolism and, unexpectedly, bile acids, showed significant concentration differences between the phenotypic groups. Dysregulation of bile acid metabolism was confirmed by targeted quantitative analysis, which revealed an imbalance in favor of hydrophobic bile acids associated with changes in conjugation, which was more pronounced in the severe phenotype. Using a random forest model, the cholic acid/chenodeoxycholic acid ratio enables the differential classification of severe patients from other patients with a diagnostic accuracy of 84%. The analysis of urine samples revealed significant modifications in the metabolome of AIP patients. Alteration in bile acids provides new insights into the pathophysiology of chronic complications, such as primary liver cancer, while also providing new biomarker candidates for predicting the most severe phenotypes., (© 2024 SSIEM.)
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- 2024
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37. High-Throughput Equine Doping Controls on a Trapped Ion Mobility Quadrupole-Time-of-Flight Mass Spectrometer: Technical Considerations of dia/slice/prmPASEF Applied to the Long-Term Detection of Monoclonal Antibodies.
- Author
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Delcourt V, Pinetre J, Chabot B, Barnabé A, Cacault M, Loup B, Becher F, Fenaille F, Popot MA, Garcia P, and Bailly-Chouriberry L
- Abstract
Data-independent acquisition (DIA) methods employing a scanning quadrupole were recently described across multiple platforms. These strategies display remarkable performances in untargeted proteomics studies thanks to rapid duty cycles, leading to ultrashort liquid chromatography gradients while maintaining enough data points per peaks when coupled to fast-scanning mass analyzer. In this article, we perform the evaluation of three data acquisition strategies named diaPASEF,slicePASEF, and prmPASEF on a trapped ion mobility spectrometry quadrupole-time-of-flight (TIMS-Q-TOF) mass spectrometer for high-throughput doping control screening analyses. We report that slicePASEF outperforms diaPASEF and is almost as sensitive as prmPASEF in detecting humanized monoclonal antibodies for several weeks in equine plasma after administration. We observed that diaPASEF is still providing the best performances in untargeted proteomics studies employing high amounts of input materials, which is linked with the high complexity of slicePASEF data and current processing algorithms., (© 2024 John Wiley & Sons Ltd.)
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- 2024
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38. Red blood cell metabolomics identify ergothioneine as a key metabolite in DMARD-naïve rheumatoid arthritis and response to methotrexate.
- Author
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Sigaux J, Junot C, Boissier MC, Petit M, Breckler M, Castelli F, Fenaille F, Roméo PH, and Semerano L
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- Humans, Male, Female, Middle Aged, Adult, Aged, Metabolome drug effects, Arthritis, Rheumatoid drug therapy, Arthritis, Rheumatoid blood, Arthritis, Rheumatoid metabolism, Methotrexate therapeutic use, Ergothioneine blood, Erythrocytes metabolism, Metabolomics methods, Antirheumatic Agents therapeutic use
- Abstract
Using a new red blood cell (RBC) metabolite extraction protocol, we performed a metabolomic analysis on RBCs in rheumatoid arthritis (RA) patients treated or not with methotrexate (MTX), with the two following objectives: to compare the RBC metabolic profiles of MTX-naïve RA patients and healthy controls (HC), and to investigate whether RBC profiles before and after MTX treatment in RA differed between responders and non-responders. Plasma analysis was performed in parallel. Metabolites were extracted and identified in RBCs and plasma by liquid chromatography-mass spectrometry. We compared the metabolomic fingerprints of 31 DMARD-naïve RA patients and 39 HCs. We also compared the RBC and plasma metabolomes of 25 RA patients who responded or not to MTX therapy before (M0) and after a 3-month treatment period (M3). Significance was determined by Storey's false discovery rate (FDR) q-values to correct for multiple testing. RA patients and HCs differed in the metabolomic signature of RBCs. The signature mainly contained amino acids (AA). Eleven metabolites, including 4 metabolites belonging to the carbohydrate subclass and 2 amino acids (creatine and valine) showed accumulation in RBCs from RA patients. Conversely, citrulline (fold change = 0.83; q = 0.025), histidine (fold change = 0.86; q = 0.014) and ergothioneine (EGT) (fold change = 0.66; q = 0.024), were lower in RBC of RA patients. Five plasma metabolites, including succinic acid and hydroxyproline, were higher in RA patients, and 7 metabolites, including DHEA sulfate, alanine, threonine and ornithine, were lower. Among RA patients undergoing MTX treatment pre-treatment (M0), EGT values were significantly lower in non-responders. In conclusion, low RBC levels of EGT, a food-derived AA barely detectable in plasma, characterize DMARD naïve RA patients and lack of response to MTX treatment., (© 2024. The Author(s).)
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- 2024
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39. Rapid detection of ricin at trace levels in complex matrices by asialofetuin-coated beads and bottom-up proteomics using high-resolution mass spectrometry.
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Piquet P, Saadi J, Fenaille F, Kalb SR, and Becher F
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- Humans, Limit of Detection, Ricin analysis, Proteomics methods, Mass Spectrometry methods
- Abstract
Ricin is a toxic protein regarded as a potential chemical weapon for bioterrorism or criminal use. In the event of a ricin incident, rapid analytical methods are essential for ricin confirmation in a diversity of matrices, from environmental to human or food samples. Mass spectrometry-based methods provide specific toxin identification but require prior enrichment by antibodies to reach trace-level detection in matrices. Here, we describe a novel assay using the glycoprotein asialofetuin as an alternative to antibodies for ricin enrichment, combined with the specific detection of signature peptides by high-resolution mass spectrometry. Additionally, optimizations made to the assay reduced the sample preparation time from 5 h to 80 min only. Method evaluation confirmed the detection of ricin at trace levels over a wide range of pH and in protein-rich samples, illustrating challenging matrices. This new method constitutes a relevant antibody-free solution for the fast and specific mass spectrometry detection of ricin in the situation of a suspected toxin incident, complementary to active ricin determination by adenine release assays., (© 2024. The Author(s).)
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- 2024
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40. Origin and characterization of cyclodepsipeptides: Comprehensive structural approaches with focus on mass spectrometry analysis of alkali-cationized molecular species.
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Liuu S, Damont A, Perret A, Firmesse O, Becher F, Lavison-Bompard G, Hueber A, Woods AS, Darii E, Fenaille F, and Tabet JC
- Abstract
Cyclodepsipeptides (CDPs) represent a huge family of chemically and structurally diverse molecules with a wide ability for molecular interactions. CDPs are cyclic peptide-related natural products made up of both proteinogenic and nonproteinogenic amino acids linked by amide and ester bonds. The combined use of different analytical methods is required to accurately determine their integral structures including stereochemistry, thus allowing deeper insights into their often-intriguing bioactivities and their possible usefulness. Our goal is to present the various methods developed to accurately characterize CDPs. Presently, Marfey's method and NMR (nuclear magnetic resonance) are still considered the best for characterizing CDP configuration. Nevertheless, electrospray-high resolution tandem mass spectrometry (ESI-HRMS/MS) is of great value for efficiently resolving CDP's composition and sequences. For instance, recent data shows that the fragmentation of cationized CDPs (e.g., [M + Li]
+ and [M + Na]+ ) leads to selective cleavage of ester bonds and specific cationized product ions (b series) useful to get unprecedented sequence information. Thus, after a brief presentation of their structure, biological functions, and biosynthesis, we also provide a historic overview of these various analytical approaches as well as their advantages and limitations with a special emphasis on the emergence of methods based on HRMS/MS through recent fundamental works and applications., (© 2024 The Author(s). Mass Spectrometry Reviews published by Wiley Periodicals LLC.)- Published
- 2024
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41. Metabolomics Analysis of Rabbit Plasma after Ocular Exposure to Vapors of Sulfur Mustard.
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Bouhlel J, Caffin F, Gros-Désormeaux F, Douki T, Benoist JF, Castelli FA, Chu-Van E, Piérard C, Junot C, and Fenaille F
- Abstract
Sulfur mustard (SM) is a highly potent alkylating vesicant agent and remains a relevant threat to both civilians and military personnel. The eyes are the most sensitive organ after airborne SM exposure, causing ocular injuries with no antidote or specific therapeutics available. In order to identify relevant biomarkers and to obtain a deeper understanding of the underlying biochemical events, we performed an untargeted metabolomics analysis using liquid chromatography coupled to high-resolution mass spectrometry of plasma samples from New Zealand white rabbits ocularly exposed to vapors of SM. Metabolic profiles (332 unique metabolites) from SM-exposed (n = 16) and unexposed rabbits (n = 8) were compared at different time intervals from 1 to 28 days. The observed time-dependent changes in metabolic profiles highlighted the profound dysregulation of the sulfur amino acids, the phenylalanine, the tyrosine and tryptophan pathway, and the polyamine and purine biosynthesis, which could reflect antioxidant and anti-inflammatory activities. Taurine and 3,4-dihydroxy-phenylalanine (Dopa) seem to be specifically related to SM exposure and correspond well with the different phases of ocular damage, while the dysregulation of adenosine, polyamines, and acylcarnitines might be related to ocular neovascularization. Additionally, neither cysteine, N-acetylcysteine, or guanine SM adducts were detected in the plasma of exposed rabbits at any time point. Overall, our study provides an unprecedented view of the plasma metabolic changes post-SM ocular exposure, which may open up the development of potential new treatment strategies.
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- 2024
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42. Charge-solvated versus protonated salt forms of cyclodepsipeptide toxins in electrospray: Dissociation of alkali-cationized forms enables straightforward sequencing of cereulide.
- Author
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Liuu S, Trinh KE, Darii E, Cao C, Damont A, Gimbert Y, Fenaille F, Makni Y, Inthavong C, Lavison-Bompard G, Hennekinne JA, Firmesse O, and Tabet JC
- Subjects
- Alkalies chemistry, Bacillus cereus chemistry, Salts chemistry, Depsipeptides chemistry, Spectrometry, Mass, Electrospray Ionization methods, Cations chemistry, Protons
- Abstract
Bacillus cereus is responsible for foodborne outbreaks worldwide. Among the produced toxins, cereulide induces nausea and vomiting after 30 min to 6 h following the consumption of contaminated foods. Cereulide, a cyclodepsipeptide, is an ionophore selective to K
+ in solution. In electrospray, the selectivity is reduced as [M + Li]+ ; [M + Na]+ and [M + NH4 ]+ can also be detected without adding corresponding salts. Two forms are possible for alkali-cationized ions: charge-solvated (CS) that exclusively dissociates by releasing a bare alkali ion and protonated salt (PS), yielding alkali product ions by covalent bond cleavages (CBC) promoted by mobile proton. Based on a modified peptide cleavage nomenclature, the PS product ion series (b, a, [b + H2 O] and [b + Cn H2n O] [n = 4, 5]) are produced by Na+ /Li+ /K+ -cationized cereulide species that specifically open at ester linkages followed by proton mobilization promoting competitive ester CBC as evidenced under resonant collision activation. What is more, unlike the sodiated or lithiated cereulide, which regenerates little or no alkali cation, the potassiated forms lead to an abundant K+ regeneration. This occurs by splitting of (i) the potassiated CS forms with an appearance threshold close to that of the PS first fragment ion generation and (ii) eight to four potassiated residue product ions from the PS forms. Since from Na+ /Li+ -cationized cereulide, (i) the negligible Na+ /Li+ regeneration results in a higher sensibility than that of potassiated forms that abundantly releasing K+ , and (ii) a better sequence recovering, the use of Na+ (or Li+ ) should be more pertinent to sequence isocereulides and other cyclodepsipeptides., (© 2024 The Authors. Journal of Mass Spectrometry published by John Wiley & Sons Ltd.)- Published
- 2024
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43. An orally active carbon monoxide-releasing molecule enhances beneficial gut microbial species to combat obesity in mice.
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Benrahla DE, Mohan S, Trickovic M, Castelli FA, Alloul G, Sobngwi A, Abdiche R, Kieser S, Demontant V, Trawinski E, Chollet C, Rodriguez C, Kitagishi H, Fenaille F, Trajkovski M, Motterlini R, and Foresti R
- Subjects
- Animals, Mice, Administration, Oral, Akkermansia drug effects, Male, Feces microbiology, Disease Models, Animal, Mice, Inbred C57BL, Gastrointestinal Microbiome drug effects, Obesity metabolism, Obesity drug therapy, Obesity microbiology, Carbon Monoxide metabolism, Diet, High-Fat adverse effects
- Abstract
Carbon monoxide (CO), a gaseous signaling molecule, has shown promise in preventing body weight gain and metabolic dysfunction induced by high fat diet (HFD), but the mechanisms underlying these effects are largely unknown. An essential component in response to HFD is the gut microbiome, which is significantly altered during obesity and represents a target for developing new therapeutic interventions to fight metabolic diseases. Here, we show that CO delivered to the gut by oral administration with a CO-releasing molecule (CORM-401) accumulates in faeces and enriches a variety of microbial species that were perturbed by a HFD regimen. Notably, Akkermansia muciniphila, which exerts salutary metabolic effects in mice and humans, was strongly depleted by HFD but was the most abundant gut species detected after CORM-401 treatment. Analysis of bacterial transcripts revealed a restoration of microbial functional activity, with partial or full recovery of the Krebs cycle, β-oxidation, respiratory chain and glycolysis. Mice treated with CORM-401 exhibited normalization of several plasma and fecal metabolites that were disrupted by HFD and are dependent on Akkermansia muciniphila's metabolic activity, including indoles and tryptophan derivatives. Finally, CORM-401 treatment led to an improvement in gut morphology as well as reduction of inflammatory markers in colon and cecum and restoration of metabolic profiles in these tissues. Our findings provide therapeutic insights on the efficacy of CO as a potential prebiotic to combat obesity, identifying the gut microbiota as a crucial target for CO-mediated pharmacological activities against metabolic disorders., Competing Interests: Declaration of competing interest R.M. and RF. are co-inventors on a patent application (EP4275682A1) submitted by INSERM and University Paris Val de Marne that covers therapeutic effects of carbon monoxide on dysbiosis., (Copyright © 2024 The Authors. Published by Elsevier B.V. All rights reserved.)
- Published
- 2024
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44. Interplatform comparison between three ion mobility techniques for human plasma lipid collision cross sections.
- Author
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George AC, Schmitz I, Rouvière F, Alves S, Colsch B, Heinisch S, Afonso C, Fenaille F, and Loutelier-Bourhis C
- Subjects
- Humans, Reproducibility of Results, Metabolomics, Lipids
- Abstract
The implementation of ion mobility spectrometry (IMS) in liquid chromatography-high-resolution mass spectrometry (LC-HRMS) workflows has become a valuable tool for improving compound annotation in metabolomics analyses by increasing peak capacity and by adding a new molecular descriptor, the collision cross section (CCS). Although some studies reported high repeatability and reproducibility of CCS determination and only few studies reported good interplatform agreement for small molecules, standardized protocols are still missing due to the lack of reference CCS values and reference materials. We present a comparison of CCS values of approximatively one hundred lipid species either commercially available or extracted from human plasma. We used three different commercial ion mobility technologies from different laboratories, drift tube IMS (DTIMS), travelling wave IMS (TWIMS) and trapped IMS (TIMS), to evaluate both instrument repeatability and interlaboratory reproducibility. We showed that CCS discrepancies of 0.3% (average) could occur depending on the data processing software tools. Moreover, eleven CCS calibrants were evaluated yielding mean RSD below 2% for eight calibrants, ESI Low concentration tuning mix (Tune Mix) showing the lowest RSD (< 0.5%) in both ion modes. Tune Mix calibrated CCS from the three different IMS instruments proved to be well correlated and highly reproducible (R
2 > 0.995 and mean RSD ≤ 1%). More than 90% of the lipid CCS had deviations of less than 1%, demonstrating high comparability between techniques, and the possibility to use the CCS as molecular descriptor. We highlighted the need of standardized procedures for calibration, data acquisition, and data processing. This work demonstrates that using harmonized analytical conditions are required for interplatform reproducibility for CCS determination of human plasma lipids., Competing Interests: Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2024 The Authors. Published by Elsevier B.V. All rights reserved.)- Published
- 2024
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45. Innovative direct introduction-ion mobility-mass spectrometry (DI-IM-MS) approach for fast and robust isomer-specific quantification in a complex matrix: Application to 2'-fucosyllactose (2'-FL) in breast milk.
- Author
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Rathahao-Paris E, Abdoun S, Paris A, Guillon B, Venot E, Fenaille F, Adel-Patient K, and Alves S
- Subjects
- Humans, Isomerism, Female, Mass Spectrometry methods, Milk, Human chemistry, Trisaccharides analysis, Trisaccharides chemistry, Oligosaccharides analysis, Oligosaccharides chemistry, Ion Mobility Spectrometry methods
- Abstract
Identification and specific quantification of isomers in a complex biological matrix by mass spectrometry alone is not an easy task due to their identical chemical formula and therefore their same mass-to-charge ratio (m/z). Here, the potential of direct introduction combined with ion mobility-mass spectrometry (DI-IM-MS) for rapid quantification of isomers as human milk oligosaccharides (HMOs) was investigated. Differences in HMO profiles between various analyzed breast milk samples were highlighted using the single ion mobility monitoring (SIM
2 ) acquisition for high ion mobility resolution detection. Furthermore, the Se+ (secretor) or Se- (non-secretor) phenotype could be assigned to breast milk samples studied based on their HMO contents, especially on the response of 2'-fucosyllactose (2'-FL) and lacto-N-fucopentaose I (LNFP I). The possibility of quantifying a specific isomer in breast milk by DI-IM-MS was also investigated. The standard addition method allowed the determination of the 2'-FL despite the presence of other oligosaccharides, including 3-fucosyllactose (3-FL) isomer in breast milk. This proof-of-concept study demonstrated the high potential of such an approach for the rapid and convenient quantification of isomers in complex mixtures., (© 2024 John Wiley & Sons, Ltd.)- Published
- 2024
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46. Energy Resolved Mass Spectrometry for Interoperable Non-resonant Collisional Spectra in Metabolomics.
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Hueber A, Kulyk H, Damont A, Nicol E, Alves S, Liuu S, Green M, Bertrand-Michel J, Cenac N, Fenaille F, and Tabet JC
- Subjects
- Amino Acids analysis, Amino Acids chemistry, Amino Acids metabolism, Metabolomics methods, Mass Spectrometry methods
- Abstract
In untargeted metabolomics, the unambiguous identification of metabolites remains a major challenge. This requires high-quality spectral libraries for reliable metabolite identification, which is essential for translating metabolomics data into meaningful biological information. Several attempts have been made to generate reproducible product ion spectra (PIS) under a low collision energy ( E
Lab ) regime and nonresonant collisional conditions but have not fully succeeded. We examined the ERMS (energy-resolved mass spectrometry) breakdown curves of two lipo-amino acids and showed the possibility to highlight "singular points", called descriptors hereafter (linked to respective ELab depending on the instrument), for each of the monomodal product ion profiles. Using several instruments based on different technologies, the PIS recorded at these specific ELab sites shows remarkable similarities. The descriptors appeared as being independent of the fragmentation mechanisms and can be used to overcome the main instrumental effects that limit the interoperability of spectral libraries. This proof-of-concept study, performed on two particular lipo-amino acids, demonstrates the high potential of ERMS-derived information to determine the instrument-specific ELab at which PIS recorded in nonresonant conditions become highly similar and instrument-independent, thus comparable across platforms. This innovative but straightforward approach could help remove some of the obstacles to metabolite identification in nontargeted metabolomics, putting an end to a challenging chimera.- Published
- 2024
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47. MilkOligoThesaurus, a dataset of mammalian milk oligosaccharide synonyms.
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Rumeau M, Fenaille F, Girard A, Loux V, Ba M, Nédellec C, Deléger L, Bossy R, Aubin S, Knudsen C, and Combes S
- Abstract
There is a growing interest in milk oligosaccharides (MOs) because of their numerous benefits for newborns' and long-term health. A large number of MO structures have been identified in mammalian milk. Mostly described in human milk, the oligosaccharide richness, although less broad, has also been reported for a wide range of mammalian species. The structure of MOs is particularly difficult to report as it results from the combination of 5 monosaccharides linked by various glycosidic bonds forming structurally diverse and complex matrices of linear and branched oligosaccharides. Exploring the literature and extracting relevant information on MO diversity within or across species appears promising to elucidate structure-function role of MOs. Currently, given the complexity of these molecules, the main issues in exploring literature to extract relevant information on MO diversity within or across species relate to the heterogeneity in the way authors refer to these molecules. Herein, we provide a thesaurus (MilkOligoThesaurus) including the names and synonyms of MOs collected from key selected articles on mammalian milk analyses. MilkOligoThesaurus gathers the names of the MOs with a complete description of their monosaccharide composition and structures. When available, each unique MO molecule is linked to its ID from the NCBI PubChem and ChEBI databases. MilkOligoThesaurus is provided in a tabular format. It gathers 245 unique oligosaccharide structures described by 22 features (columns) including the name of the molecule, its abbreviation, the chemical database IDs if available, the monosaccharide composition, chemical information (molecular formula, monoisotopic mass), synonyms, its formula in condensed form, and in abbreviated condensed form, the abbreviated systematic name, the systematic name, the isomer group, and scientific article sources. MilkOligoThesaurus is also provided in the SKOS (Simple Knowledge Organization System) format. This thesaurus is a valuable resource gathering MO naming variations that are not found elsewhere for (i) Text and Data Mining to enable automatic annotation and rapid extraction of milk oligosaccharide data from scientific papers; (ii) biology researchers aiming to search for or decipher the structure of milk oligosaccharides based on any of their names, abbreviations or monosaccharide compositions and linkages., (© 2024 The Author(s).)
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- 2024
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48. Impact of Source Conditions on Collision Cross Section Determination by Trapped Ion Mobility Spectrometry.
- Author
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George AC, Schmitz I, Colsch B, Afonso C, Fenaille F, and Loutelier-Bourhis C
- Abstract
Collision cross section (CCS) values determined in ion mobility-mass spectrometry (IM-MS) are increasingly employed as additional descriptors in metabolomics studies. CCS values must therefore be reproducible and the causes of deviations must be carefully known and controlled. Here, we analyzed lipid standards by trapped ion mobility spectrometry-mass spectrometry (TIMS-MS) to evaluate the effects of solvent and flow rate in flow injection analysis (FIA), as well as electrospray source parameters including nebulizer gas pressure, drying gas flow rate, and temperature, on the ion mobility and CCS values. The stability of ion mobility experiments was studied over 10 h, which established the need for a delay-time of 20 min to stabilize source parameters (mostly pressure and temperature). Modifications of electrospray source parameters induced shifts of ion mobility peaks and even the occurrence of an additional peak in the ion mobility spectra. This behavior could be essentially explained by ion-solvent cluster formation. Changes in source parameters were also found to impact CCS value measurements, resulting in deviations up to 0.8%. However, internal calibration with the Tune Mix calibrant reduced the CCS deviations to 0.1%. Thus, optimization of source parameters is essential to achieve a good desolvation of lipid ions and avoid misinterpretation of peaks in ion mobility spectra due to solvent effects. This work highlights the importance of internal calibration to ensure interoperable CCS values, usable in metabolomics annotation.
- Published
- 2024
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49. Efficacy of oral manganese and D-galactose therapy in a patient bearing a novel TMEM165 variant.
- Author
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Durin Z, Raynor A, Fenaille F, Cholet S, Vuillaumier-Barrot S, Alili JM, Poupon J, Oussedik ND, Tuchmann-Durand C, Attali J, Touzé R, Dupré T, Lebredonchel E, Akaffou MA, Legrand D, de Lonlay P, Bruneel A, and Foulquier F
- Subjects
- Humans, Manganese metabolism, Galactose, Antiporters metabolism, Golgi Apparatus genetics, Golgi Apparatus metabolism, Cation Transport Proteins metabolism, Congenital Disorders of Glycosylation genetics, Congenital Disorders of Glycosylation metabolism
- Abstract
TMEM165-CDG has first been reported in 2012 and manganese supplementation was shown highly efficient in rescuing glycosylation in isogenic KO cells. The unreported homozygous missense c.928G>C; p.Ala310Pro variant leading to a functional but unstable protein was identified. This patient was diagnosed at 2 months and displays a predominant bone phenotype and combined defects in N-, O- and GAG glycosylation. We administered for the first time a combined D-Gal and Mn
2+ therapy to the patient. This fully suppressed the N-; O- and GAG hypoglycosylation. There was also striking improvement in biochemical parameters and in gastrointestinal symptoms. This study offers exciting therapeutic perspectives for TMEM165-CDG., (Copyright © 2023 The Author(s). Published by Elsevier Inc. All rights reserved.)- Published
- 2024
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50. "Hide and seek": Misleading transferrin variants in PMM2-CDG complicate diagnostics.
- Author
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Raynor A, Bruneel A, Vermeersch P, Cholet S, Friedrich S, Eckenweiler M, Schumann A, Hengst S, Tuncel AT, Fenaille F, Thiel C, and Rymen D
- Subjects
- Humans, Transferrin genetics, Transferrin metabolism, Neuraminidase metabolism, Glycosylation, Congenital Disorders of Glycosylation diagnosis, Congenital Disorders of Glycosylation genetics, Congenital Disorders of Glycosylation complications, Phosphotransferases (Phosphomutases) deficiency
- Abstract
Purpose: Congenital disorders of glycosylation (CDG) are one of the fastest growing groups of inborn errors of metabolism. Despite the availability of next-generation sequencing techniques and advanced methods for evaluation of glycosylation, CDG screening mainly relies on the analysis of serum transferrin (Tf) by isoelectric focusing, HPLC or capillary electrophoresis. The main pitfall of this screening method is the presence of Tf protein variants within the general population. Although reports describe the role of Tf variants leading to falsely abnormal results, their significance in confounding diagnosis in patients with CDG has not been documented so far. Here, we describe two PMM2-CDG cases, in which Tf variants complicated the diagnostic., Experimental Design: Glycosylation investigations included classical screening techniques (capillary electrophoresis, isoelectric focusing and HPLC of Tf) and various confirmation techniques (two-dimensional electrophoresis, western blot, N-glycome, UPLC-FLR/QTOF MS with Rapifluor). Tf variants were highlighted following neuraminidase treatment. Sequencing of PMM2 was performed., Results: In both patients, Tf screening pointed to CDG-II, while second-line analyses pointed to CDG-I. Tf variants were found in both patients, explaining these discrepancies. PMM2 causative variants were identified in both patients., Conclusion and Clinical Relevance: We suggest that a neuraminidase treatment should be performed when a typical CDG Tf pattern is found upon initial screening analysis., (© 2023 Wiley-VCH GmbH.)
- Published
- 2024
- Full Text
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