Genome-wide characterization of circulating metabolic biomarkers

Minna K. Karjalainen, Savita Karthikeyan, Clare Oliver-Williams, Eeva Sliz, Elias Allara, Wing Tung Fung, Praveen Surendran, Weihua Zhang, Pekka Jousilahti, Kati Kristiansson, Veikko Salomaa, Matt Goodwin, David A. Hughes, Michael Boehnke, Lilian Fernandes Silva, Xianyong Yin, Anubha Mahajan, Matt J. Neville, Natalie R. van Zuydam, Renée de MutsertRuifang Li-Gao, Dennis O. Mook-Kanamori, Ayse Demirkan, Jun Liu, Raymond Noordam, Stella Trompet, Zhengming Chen, Christiana Kartsonaki, Liming Li, Kuang Lin, Fiona A. Hagenbeek, Jouke Jan Hottenga, René Pool, M. Arfan Ikram, Joyce van Meurs, Toomas Haller, Yuri Milaneschi, Mika Kähönen, Pashupati P. Mishra, Peter K. Joshi, Erin Macdonald-Dunlop, Massimo Mangino, Jonas Zierer, Ilhan E. Acar, Carel B. Hoyng, Yara T.E. Lechanteur, Lude Franke, Alexander Kurilshikov, Alexandra Zhernakova, Marian Beekman, Erik B. van den Akker, Ivana Kolcic, Ozren Polasek, Igor Rudan, Christian Gieger, Melanie Waldenberger, Folkert W. Asselbergs, Caroline Hayward, Jingyuan Fu, Anneke I. den Hollander, Cristina Menni, Tim D. Spector, James F. Wilson, Terho Lehtimäki, Olli T. Raitakari, Brenda W.J.H. Penninx, Tonu Esko, Robin G. Walters, J. Wouter Jukema, Naveed Sattar, Mohsen Ghanbari, Ko Willems van Dijk, Fredrik Karpe, Mark I. McCarthy, Markku Laakso, Marjo Riitta Järvelin, Nicholas J. Timpson, Markus Perola, Jaspal S. Kooner, John C. Chambers, Cornelia van Duijn, P. Eline Slagboom, Dorret I. Boomsma, John Danesh, Mika Ala-Korpela, Adam S. Butterworth, Johannes Kettunen

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Abstract

Genome-wide association analyses using high-throughput metabolomics platforms have led to novel insights into the biology of human metabolism1–7. This detailed knowledge of the genetic determinants of systemic metabolism has been pivotal for uncovering how genetic pathways influence biological mechanisms and complex diseases8–11. Here we present a genome-wide association study for 233 circulating metabolic traits quantified by nuclear magnetic resonance spectroscopy in up to 136,016 participants from 33 cohorts. We identify more than 400 independent loci and assign probable causal genes at two-thirds of these using manual curation of plausible biological candidates. We highlight the importance of sample and participant characteristics that can have significant effects on genetic associations. We use detailed metabolic profiling of lipoprotein- and lipid-associated variants to better characterize how known lipid loci and novel loci affect lipoprotein metabolism at a granular level. We demonstrate the translational utility of comprehensively phenotyped molecular data, characterizing the metabolic associations of intrahepatic cholestasis of pregnancy. Finally, we observe substantial genetic pleiotropy for multiple metabolic pathways and illustrate the importance of careful instrument selection in Mendelian randomization analysis, revealing a putative causal relationship between acetone and hypertension. Our publicly available results provide a foundational resource for the community to examine the role of metabolism across diverse diseases.

Original languageEnglish
Number of pages21
JournalNature
Volume628
DOIs
Publication statusPublished - 2024
Publication typeA1 Journal article-refereed

Publication forum classification

  • Publication forum level 3

ASJC Scopus subject areas

  • Cardiology and Cardiovascular Medicine
  • Biochemistry, medical
  • Genetics(clinical)
  • Physiology (medical)

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