A1 Refereed original research article in a scientific journal
Multiplatform metabolomic interlaboratory study of a whole human stool candidate reference material from omnivore and vegan donors
Authors: Cruz, Abraham Kuri; Alves, Marina Amaral; Andresson, Thorkell; Bayless, Amanda L.; Bloodsworth, Kent J.; Bowden, John A.; Bullock, Kevin; Burnet, Meagan C.; Carnevale Neto, Fausto; Choy, Angelina; Clish, Clary B.; Couvillion, Sneha P.; Cumeras, Raquel; Dailey, Lucas; Dallmann, Guido; Davis, W. Clay; Deik, Amy A.; Dickens, Alex M.; Djukovic, Danijel; Dorrestein, Pieter C.; Eder, Josie G.; Fiehn, Oliver; Flores, Roberto; Gika, Helen; Hagiwara, Kehau A.; Pham, Tuan Hai; Harynuk, James J.; Aristizabal-Henao, Juan J.; Hoyt, David W.; Jean-Francois, Focant; Krakstroem, Matilda; Kumar, Amit; Kyle, Jennifer E.; Lamichhane, Santosh; Li, Yuan; Nam, Seo Lin; Mandal, Rupasri; de la Mata, A. Paulina; Meehan, Michael J.; Meikopoulos, Thomas; Metz, Thomas O.; Mouskeftara, Thomai; Munoz, Nathalie; Gowda, G. A. Nagana; Orešic, Matej; Panitchpakdi, Morgan; Pierre-Hugues, Stefanuto; Raftery, Daniel; Rushing, Blake; Schock, Tracey; Seifried, Harold; Servetas, Stephanie; Shen, Tong; Sumner, Susan; Carrillo, Kieran S. Tarazona; Thibaut, Dejong; Trejo, Jesse B.; Van Meulebroek, Lieven; Vanhaecke, Lynn; Virgiliou, Christina; Weldon, Kelly C.; Wishart, David S.; Zhang, Lu; Zheng, Jiamin; Da Silva, Sandra
Publisher: Springer Science and Business Media LLC
Publishing place: NEW YORK
Publication year: 2024
Journal: Metabolomics
Journal name in source: Metabolomics
Journal acronym: METABOLOMICS
Article number: 125
Volume: 20
Issue: 6
Number of pages: 14
ISSN: 1573-3882
eISSN: 1573-3890
DOI: https://doi.org/10.1007/s11306-024-02185-0
Web address : https://doi.org/10.1007/s11306-024-02185-0
Self-archived copy’s web address: https://pmc.ncbi.nlm.nih.gov/articles/PMC11904883/
Introduction
Human metabolomics has made significant strides in understanding metabolic changes and their implications for human health, with promising applications in diagnostics and treatment, particularly regarding the gut microbiome. However, progress is hampered by issues with data comparability and reproducibility across studies, limiting the translation of these discoveries into practical applications.
Objectives
This study aims to evaluate the fit-for-purpose of a suite of human stool samples as potential candidate reference materials (RMs) and assess the state of the field regarding harmonizing gut metabolomics measurements.
Methods
An interlaboratory study was conducted with 18 participating institutions. The study allowed for the use of preferred analytical techniques, including liquid chromatography-mass spectrometry (LC-MS), gas chromatography-mass spectrometry (GC-MS), and nuclear magnetic resonance (NMR).
Results
Different laboratories used various methods and analytical platforms to identify the metabolites present in human stool RM samples. The study found a 40% to 70% recurrence in the reported top 20 most abundant metabolites across the four materials. In the full annotation list, the percentage of metabolites reported multiple times after nomenclature standardization was 36% (LC-MS), 58% (GC-MS) and 76% (NMR). Out of 9,300 unique metabolites, only 37 were reported across all three measurement techniques.
Conclusion
This collaborative exercise emphasized the broad chemical survey possible with multi-technique approaches. Community engagement is essential for the evaluation and characterization of common materials designed to facilitate comparability and ensure data quality underscoring the value of determining current practices, challenges, and progress of a field through interlaboratory studies.
Funding information in the publication:
Rahoitustiedot: P.C.D. would like to acknowledge support from NIH U19 AG063744, and support for the collaborative microbial metabolite center to P.C.D (1U24DK133658). Mass spectrometry-based metabolomics and lipidomics data generated at PNNL were supported by National Center for Complementary and Integrative Health grant R01 AT010271 (T.O.M.) and National Institute of Environmental Health Sciences grant U2CES030170 (T.O.M.). K.T., S.L.N., A.P.D.l.M., and J.J.H. would like to thank MITACS, DNA Genotek, Inc., and The Natural Sciences and Engineering Research Council of Canada (NSERC) for support. The support of The Canada Foundation for Innovation (CFI), Genome Canada, and Genome Alberta to The Metabolomics Innovation Center (TMIC) is also acknowledged. Metabolomics assays performed at the University of Alberta and The Metabolomics Innovation Centre (TMIC) were funded, in part, by Genome Canada and the Canada Foundation for Innovation. R.C. acknowledges that "This project received funding from the European Union's Horizon 2020 research and innovation program under the Marie Sklodowska-Curie Grant Agreement No. (798038)”. B.R.R. and S. S. would like to declare that this study was supported by the NIEHS through the Human Health Exposure Analysis Resource (HHEAR) program through grant 5U2CES030857 and by NCI through the Metabolomics and Clinical Assay Center of the Nutrition for Precision Health (NPH) program through grant 5U24CA268153.
