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An Integrative Action for Metabolomic Analyses in Human Nutritional

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An Integrative Action for Metabolomic Analyses in Human Nutritional REVIEW Nutritional Metabolomics Nutritional metabolomics (nu- trimetabolomics) requires a trans- M. M. Ulaszewska, C. H. Weinert, A. disciplinary effort spanning the fields Trimigno, R. Portmann, C. Andres of food science, human nutrition, ana- Lacueva, R. Badertscher, L. Brennan, lytical chemistry, and bioinformatics. C. Brunius, A. Bub, F. Capozzi, M. Ciali`e Rosso, C. E. Cordero, H. Daniel, S. Durand, B. Egert, P. G. Ferrario, E. J. M. Feskens, P. Franceschi, M. Garcia-Aloy, F. Giacomoni, P. Giesbertz, R. Gonz´alez-Dom´ınguez, K. Hanhineva, L. Y. Hemeryck, J. Kopka, S. E. Kulling, R. Llorach, C. Manach, F. Mattivi, C. Mign´e, L. H. Munger,¨ B. Ott, G. Picone, G. Pimentel, E. Pujos-Guillot, S. Riccadonna, M. J. Rist, C. Rombouts, J. Rubert, T. Skurk, P. S. C. Sri Harsha, L.Van Meulebroek, L. Vanhaecke, R. V´azquez-Fresno, D. Wishart, G. Verg`eres* . 1800384 Nutrimetabolomics: An Integrative Action for Metabolomic Analyses in Human Nutritional Studies REVIEW Nutritional Metabolomics www.mnf-journal.com Nutrimetabolomics: An Integrative Action for Metabolomic Analyses in Human Nutritional Studies Marynka M. Ulaszewska, Christoph H. Weinert, Alessia Trimigno, Reto Portmann, Cristina Andres Lacueva, Ren´e Badertscher, Lorraine Brennan, Carl Brunius, Achim Bub, Francesco Capozzi, Marta Ciali`e Rosso, Chiara E. Cordero, Hannelore Daniel, St´ephanie Durand, Bjoern Egert, Paola G. Ferrario, Edith J.M. Feskens, Pietro Franceschi, Mar Garcia-Aloy, Franck Giacomoni, Pieter Giesbertz, Raul´ Gonzalez-Dom´ ´ınguez, Kati Hanhineva, Lieselot Y. Hemeryck, Joachim Kopka, Sabine E. Kulling, Rafael Llorach, Claudine Manach, Fulvio Mattivi, Carole Mign´e, Linda H. Munger,¨ Beate Ott, Gianfranco Picone, Gr´egory Pimentel, Estelle Pujos-Guillot, Samantha Riccadonna, Manuela J. Rist, Caroline Rombouts, Josep Rubert, Thomas Skurk, Pedapati S. C. Sri Harsha, Lieven Van Meulebroek, Lynn Vanhaecke, Rosa Vazquez-Fresno,´ David Wishart, and Guy Verg`eres* The life sciences are currently being transformed by an unprecedented wave of developments in molecular analysis, which include important advances in instrumental analysis as well as biocomputing. In light of the central role played by metabolism in nutrition, metabolomics is rapidly being established as a key analytical tool in human nutritional studies. Consequently, an increasing number of nutritionists integrate metabolomics into their study designs. Within this dynamic landscape, the potential of nutritional metabolomics (nutrimetabolomics) to be translated into a science, which can impact on health policies, still needs to be realized. A key element to reach this goal is the ability of the research community to join, to collectively make the best use of the potential offered by nutritional metabolomics. This article, therefore, provides a methodological description of nutritional metabolomics that reflects on the state-of-the-art techniques used in the laboratories of the Food Biomarker Alliance (funded by the European Joint Programming Initiative “A Healthy Diet for a Healthy Life” (JPI HDHL)) as well as points of reflections to harmonize this field. It is not intended to be exhaustive but rather to present a pragmatic guidance on metabolomic methodologies, providing readers with useful “tips and tricks” along the analytical workflow. Dr. M. M. Ulaszewska, Prof. F. Mattivi, Dr. J. Rubert Dr. A. Trimigno, Prof. F. Capozzi, Dr. G. Picone Department of Food Quality and Nutrition Department of Agricultural and Food Science Fondazione Edmund Mach University of Bologna Research and Innovation Centre Italy San Michele all’Adige, Italy Dr. R. Portmann, R. Badertscher Dr. C. H. Weinert, B. Egert, Prof. S. E. Kulling Method Development and Analytics Research Division, Agroscope, Department of Safety and Quality of Fruit and Vegetables Federal Office for Agriculture Max Rubner-Institut Berne, Switzerland Karlsruhe, Germany Prof. C. Andres Lacueva, Dr. M. Garcia-Aloy, Dr. R. Gonz´alez-Dom´ınguez, Dr.R.Llorach Biomarkers & Nutrimetabolomics Laboratory Department of Nutrition, Food Sciences and Gastronomy XaRTA, INSA Faculty of Pharmacy and Food Sciences The ORCID identification number(s) for the author(s) of this article Campus Torribera can be found under https://doi.org/10.1002/mnfr.201800384 University of Barcelona, Barcelona, Spain. CIBER de Fragilidad y DOI: 10.1002/mnfr.201800384 Envejecimiento Saludable (CIBERFES), Instituto de Salud Carlos III Barcelona, Spain Mol. Nutr. Food Res. 2018, 1800384 1800384 (1 of 38) C 2018 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim www.advancedsciencenews.com www.mnf-journal.com 1. Introduction compounds. Although nutrition research encompasses studies on the interaction of foods and nutrients with a range of bi- The rapidly growing field of metabolomics focuses on the anal- ological model systems (human, animal, cellular, enzymatic), ysis of many hundreds of metabolites in complex specimens the concept of nutritional metabolomics employed in this ar- that include biofluids, tissues, or cells. Recent advances in high- ticle specifically refers to the application of metabolomics to throughput metabolomic approaches have provided an improved the analysis of samples derived from human nutritional stud- understanding of altered metabolic pathways, new gene func- ies. As metabolomics is fundamentally phenotype-driven, nu- tions, or the regulation of important enzymes. At the same time, tritional metabolomics provides better and more individual- the integration of metabolomics with nutritional science en- ized biomarkers than most other techniques and is expected hances current clinical and research practices by providing a to furnish better indicators of dietary effects on a target pop- deeper insight into the relationships between various metabo- ulation or patients. Ultimately, the intertwining of nutrition lites and health status. Both society and industry insist and and metabolomics in nutritional metabolomics aims to achieve push for a mechanistic understanding of the impact of diet on personalized prognostic and diagnostic nutrition-making nu- human health. In nutritional metabolomics, the aim is usu- trimetabolomics one of the most promising avenues for improv- ally to investigate perturbations of the human metabolome by ing the nutritional care and dietary treatment of patients in the specific diets, foods, nutrients, microorganisms, or bioactive future. Dr. K. Hanhineva Prof. L. Brennan, Dr. P. S. C. Sri Harsha Institute of Public Health and Clinical Nutrition School of Agriculture and Food Science Department of Clinical Nutrition Institute of Food and Health University of Eastern Finland University College Dublin Kuopio, Finland Dublin, Ireland Dr. L. Y. Hemeryck, C. Rombouts, Dr. L. Van Meulebroek, Prof. L. Dr. C. Brunius Vanhaecke Department of Biology and Biological Engineering Laboratory of Chemical Analysis Food and Nutrition Science Department of Veterinary Public Health and Food Safety Chalmers University of Technology Faculty of Veterinary Medicine Gothenburg, Sweden Ghent University Prof.A.Bub,Dr.P.G.Ferrario,Dr.M.J.Rist Merelbeke, Belgium Department of Physiology and Biochemistry of Nutrition Dr.J.Kopka Max Rubner-Institut Department of Molecular Physiology Karlsruhe, Germany Applied Metabolome Analysis M. Ciali`e Rosso, Prof. C. E. Cordero Max-Planck-Institute of Molecular Plant Physiology Dipartimento di Scienza e Tecnologia del Farmaco Universit`a Potsdam-Golm, Germany degli Studi di Torino Dr. C. Manach Turin, Italy INRA Prof.H.Daniel UMR 1019 Nutritional Physiology Human Nutrition Unit Technische Universit¨at Munchen¨ Universit´e Clermont Auvergne Freising, Germany Clermont-Ferrand, France Dr. S. Durand, F. Giacomoni, Dr. C. Mign´e,Dr.E.Pujos-Guillot Prof. F. Mattivi Plateforme d’Exploration du M´etabolisme Center Agriculture Food Environment MetaboHUB-Clermont University of Trento INRA San Michele all’Adige, Italy Human Nutrition Unit Dr.L.H.Munger,Dr.G.Pimentel,Dr.G.Verg¨ `eres Universit´e Clermont Auvergne Food Microbial Systems Research Division Clermont-Ferrand, France Agroscope Prof.E.J.M.Feskens Federal Office for Agriculture Division of Human Nutrition Berne, Switzerland Wageningen University E-mail: [email protected] Wageningen, The Netherlands B. Ott, Prof. T. Skurk Dr. P. Franceschi, Dr. S. Riccadonna Else Kroner¨ Fresenius Center for Nutritional Medicine Computational Biology Unit Technical University of Munich Fondazione Edmund Mach Munich, Germany Research and Innovation Centre B. Ott, T. Skurk San Michele all’Adige ZIEL Institute for Food and Health Italy Core Facility Human Studies Dr.P.Giesbertz Technical University of Munich Molecular Nutrition Unit Freising, Germany Technische Universit¨at Munchen¨ Dr.R.V´azquez-Fresno, Dr. D. Wishart Freising, Germany Departments of Biological Sciences and Computing Science University of Alberta Edmonton, Canada Mol. Nutr. Food Res. 2018, 1800384 1800384 (2 of 38) C 2018 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim www.advancedsciencenews.com www.mnf-journal.com There is a widely acknowledged need for standardization in at lower concentrations, resulting in a larger and larger propor- both nutrition and metabolomics; however, the agreement and tion of unknown compounds to be identified, most of which are implementation of adequate standards is often difficult. These not found in available databases. This is particularly true in the needs become even more evident when considering the over- field of nutritional metabolomics, where the focus is not only on all goals of nutritional metabolomics: health
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