Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption

Marilyn C Cornelis; Enda M Byrne; Tõnu Esko; Michael A Nalls; Andrea Ganna; Nina Paynter; Keri L Monda; Najaf Amin; Krista Fischer; Frida Renstrom; Julius S Ngwa; Ville Huikari; Alana Cavadino; Ilja M Nolte; Alexander Teumer; Kai Yu; Pedro Marques-Vidal; Rajesh Rawal; Ani Manichaikul; Mary K Wojczynski; Jacqueline M Vink; Jing Hua Zhao; George Burlutsky; Jari Lahti; Vera Mikkilä; Rozenn N Lemaitre; Joel Eriksson; Solomon K Musani; Toshiko Tanaka; Frank Geller; Jian'an Luan; Jennie Hui; Reedik Mägi; Maria Dimitriou; Melissa E Garcia; Weang-Kee Ho; Margaret J Wright; Lynda M Rose; Patrik Ke Magnusson; Nancy L Pedersen; David Couper; Ben A Oostra; Albert Hofman; Mohammad Arfan Ikram; Henning W Tiemeier; Andre G Uitterlinden; Frank Ja van Rooij; Inês Barroso; Ingegerd Johansson; Luting Xue; Marika Kaakinen; Lili Milani; Chris Power; Harold Snieder; Ronald P Stolk; Sebastian E Baumeister; Reiner Biffar; Fangyi Gu; François Bastardot; Zoltán Kutalik; David R Jacobs, Jr; Nita G Forouhi; Evelin Mihailov; Lars Lind; Cecilia Lindgren; Karl Michaëlsson; Andrew Morris; Majken Jensen; Kay-Tee Khaw; Robert N Luben; Jie Jin Wang; Satu Männistö; Mia-Maria Perälä; Mika Kähönen; Terho Lehtimäki; Jorma Viikari; Dariush Mozaffarian; Kenneth Mukamal; Bruce M Psaty; Angela Döring; Andrew C Heath; Grant W Montgomery; Norbert Dahmen; Teresa Carithers; Katherine L Tucker; Luigi Ferrucci; Heather A Boyd; Mads Melbye; Jorien L Treur; Dan Mellström; Jouke Jan Hottenga; Inga Prokopenko; Anke Tönjes; Panos Deloukas; Stavroula Kanoni; Mattias Lorentzon; Denise K Houston; Yongmei Liu; John Danesh; Asif Rasheed; Marc A Mason; Alan B Zonderman; Lude Franke; Bruce S Kristal; Juha Karjalainen; Danielle R Reed; Harm-Jan Westra; Michele K Evans; Danish Saleheen; Tamara B Harris; George Dedoussis; Gary Curhan; Michael Stumvoll; John Beilby; Louis R Pasquale; Bjarke Feenstra; Stefania Bandinelli; Jose M Ordovas; Andrew T Chan; Ulrike Peters; Claes Ohlsson; Christian Gieger; Nicholas G Martin; Melanie Waldenberger; David S Siscovick; Olli Raitakari; Johan G Eriksson; Paul Mitchell; David J Hunter; Peter Kraft; Eric B Rimm; Dorret I Boomsma; Ingrid B Borecki; Ruth Jf Loos; Nicholas J Wareham; Peter Vollenweider; Neil Caporaso; Hans Jörgen Grabe; Marian L Neuhouser; Bruce Hr Wolffenbuttel; Frank B Hu; Elina Hyppönen; Marjo-Riitta Järvelin; L Adrienne Cupples; Paul W Franks; Paul M Ridker; Cornelia M van Duijn; Gerardo Heiss; Andres Metspalu; Kari E North; Erik Ingelsson; Jennifer A Nettleton; Rob M van Dam; Daniel I Chasman; North American Brain Expression Consortium (NABEC)

doi:10.1038/mp.2014.107

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Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption

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Peer reviewed

Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption

Marilyn C Cornelis, Enda M Byrne, Tõnu Esko, Michael A Nalls, Andrea Ganna, Nina Paynter, Keri L Monda, Najaf Amin, Krista Fischer, Frida Renstrom, …

Molecular psychiatry, Vol.20(5), pp.647-656

01/05/2015

DOI: https://doi.org/10.1038/mp.2014.107

PMCID: PMC4388784

PMID: 25288136

Abstract

Adaptor Proteins, Signal Transducing - genetics

Basic Helix-Loop-Helix Leucine Zipper Transcription Factors - genetics

Brain-Derived Neurotrophic Factor - genetics

Coffea - metabolism

Cytochrome P-450 CYP1A2 - genetics

Feeding Behavior

Genome-Wide Association Study

Humans

Phenotype

Polymorphism, Single Nucleotide - genetics

Coffee, a major dietary source of caffeine, is among the most widely consumed beverages in the world and has received considerable attention regarding health risks and benefits. We conducted a genome-wide (GW) meta-analysis of predominately regular-type coffee consumption (cups per day) among up to 91,462 coffee consumers of European ancestry with top single-nucleotide polymorphisms (SNPs) followed-up in ~30 062 and 7964 coffee consumers of European and African-American ancestry, respectively. Studies from both stages were combined in a trans-ethnic meta-analysis. Confirmed loci were examined for putative functional and biological relevance. Eight loci, including six novel loci, met GW significance (log10Bayes factor (BF)>5.64) with per-allele effect sizes of 0.03-0.14 cups per day. Six are located in or near genes potentially involved in pharmacokinetics (ABCG2, AHR, POR and CYP1A2) and pharmacodynamics (BDNF and SLC6A4) of caffeine. Two map to GCKR and MLXIPL genes related to metabolic traits but lacking known roles in coffee consumption. Enhancer and promoter histone marks populate the regions of many confirmed loci and several potential regulatory SNPs are highly correlated with the lead SNP of each. SNP alleles near GCKR, MLXIPL, BDNF and CYP1A2 that were associated with higher coffee consumption have previously been associated with smoking initiation, higher adiposity and fasting insulin and glucose but lower blood pressure and favorable lipid, inflammatory and liver enzyme profiles (P<5 × 10(-8)).Our genetic findings among European and African-American adults reinforce the role of caffeine in mediating habitual coffee consumption and may point to molecular mechanisms underlying inter-individual variability in pharmacological and health effects of coffee.

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Title: Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption
Creators - without role: Marilyn C Cornelis - Department of Nutrition, Harvard School of Public Health, Boston, Massachusetts, USA
Enda M Byrne - University of Queensland
Tõnu Esko - Broad Institute
Michael A Nalls - National Institute on Aging
Andrea Ganna - Karolinska Institutet
Nina Paynter - Brigham and Women's Hospital
Keri L Monda - University of North Carolina at Chapel Hill
Najaf Amin - Department of Epidemiology, Erasmus Medical Center, Rotterdam, The Netherlands
Krista Fischer - University of Tartu
Frida Renstrom - Lund University
Julius S Ngwa - Boston University
Ville Huikari - University of Oulu
Alana Cavadino - Centre for Paediatric Epidemiology and Biostatistics, Medical Research Council (MRC) Centre of Epidemiology for Child Health, University College London Institute of Child Health, London, UK
Ilja M Nolte - University Medical Center Groningen
Alexander Teumer - Genomics
Kai Yu - Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, Maryland, USA
Pedro Marques-Vidal - University Hospital of Lausanne
Rajesh Rawal - Helmholtz Zentrum München
Ani Manichaikul - University of Virginia
Mary K Wojczynski - Washington University School of Medicine, Department of Genetics, Division of Statistical Genomics, St Louis, Missouri, USA
Jacqueline M Vink - University of Amsterdam
Jing Hua Zhao - University of Cambridge
George Burlutsky - University of Sydney
Jari Lahti - Folkhälsan Research Centre, Helsinki, Finland
Vera Mikkilä - Turku University Hospital
Rozenn N Lemaitre - University of Washington
Joel Eriksson - University of Gothenburg
Solomon K Musani - University of Mississippi Medical Center
Toshiko Tanaka - National Institute on Aging
Frank Geller - Statens Serum Institut
Jian'an Luan - University of Cambridge
Jennie Hui - University of Western Australia
Reedik Mägi - University of Tartu
Maria Dimitriou - Harokopio University of Athens
Melissa E Garcia - National Institute on Aging
Weang-Kee Ho - University of Cambridge
Margaret J Wright - QIMR Berghofer Medical Research Institute
Lynda M Rose - Brigham and Women's Hospital
Patrik Ke Magnusson - Karolinska Institutet
Nancy L Pedersen - Karolinska Institutet
David Couper - University of North Carolina at Chapel Hill
Ben A Oostra - Erasmus MC
Albert Hofman - Department of Epidemiology, Erasmus Medical Center, Rotterdam, The Netherlands
Mohammad Arfan Ikram - Department of Neurology, Erasmus Medical Center, Rotterdam, The Netherlands
Henning W Tiemeier - Department of Psychiatry, Erasmus Medical Center, Rotterdam, The Netherlands
Andre G Uitterlinden - Department of Internal Medicine, Erasmus Medical Center, Rotterdam, The Netherlands
Frank Ja van Rooij - Department of Epidemiology, Erasmus Medical Center, Rotterdam, The Netherlands
Inês Barroso - University of Cambridge
Ingegerd Johansson - Umeå University
Luting Xue - Boston University
Marika Kaakinen - Imperial College London
Lili Milani - University of Tartu
Chris Power - University College London
Harold Snieder - University Medical Center Groningen
Ronald P Stolk - University Medical Center Groningen
Sebastian E Baumeister - Institute for Community Medicine, University Medicine Greifswald, Germany
Reiner Biffar - Department of Prosthodontics, Gerodontology and Biomaterials, Center of Oral Health, University Medicine Greifswald, Germany
Fangyi Gu - Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, Maryland, USA
François Bastardot - University of Lausanne
Zoltán Kutalik - SIB Swiss Institute of Bioinformatics
David R Jacobs, Jr - University of Minnesota
Nita G Forouhi - University of Cambridge
Evelin Mihailov - University of Tartu
Lars Lind - Uppsala University
Cecilia Lindgren - University of Oxford
Karl Michaëlsson - Uppsala University
Andrew Morris - University of Oxford
Majken Jensen - Department of Nutrition, Harvard School of Public Health, Boston, Massachusetts, USA
Kay-Tee Khaw - University of Cambridge
Robert N Luben - University of Cambridge
Jie Jin Wang - University of Sydney
Satu Männistö - Department of Chronic Disease Prevention, National Institute for Health and Welfare, Helsinki, Finland
Mia-Maria Perälä - Department of Chronic Disease Prevention, National Institute for Health and Welfare, Helsinki, Finland
Mika Kähönen - Tampere University Hospital
Terho Lehtimäki - University of Tampere
Jorma Viikari - Turku University Hospital
Dariush Mozaffarian - Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, USA
Kenneth Mukamal - Beth Israel Deaconess Medical Center
Bruce M Psaty - Group Health Cooperative
Angela Döring - Helmholtz Zentrum München
Andrew C Heath - Department of Psychiatry, Washington University, St.Louis, Missouri, USA
Grant W Montgomery - QIMR Berghofer Medical Research Institute
Norbert Dahmen - Department for Psychiatry, Johannes-Gutenberg-University, Mainz, Germany
Teresa Carithers - University of Mississippi
Katherine L Tucker - University of Massachusetts Lowell
Luigi Ferrucci - National Institute on Aging
Heather A Boyd - Statens Serum Institut
Mads Melbye - Statens Serum Institut
Jorien L Treur - University of Amsterdam
Dan Mellström - University of Gothenburg
Jouke Jan Hottenga - University of Amsterdam
Inga Prokopenko - Imperial College London
Anke Tönjes - IFB Adiposity Diseases
Panos Deloukas - King Abdulaziz University
Stavroula Kanoni - Queen Mary University of London
Mattias Lorentzon - University of Gothenburg
Denise K Houston - Wake Forest School of Medicine, Winston-Salem, North Carolina, USA
Yongmei Liu - Wake Forest School of Medicine, Winston-Salem, North Carolina, USA
John Danesh - University of Cambridge
Asif Rasheed - Center for Non-Communicable Diseases
Marc A Mason - National Institute on Aging
Alan B Zonderman - National Institute on Aging
Lude Franke - University Medical Center Groningen
Bruce S Kristal - Harvard Medical School
Juha Karjalainen - University Medical Center Groningen
Danielle R Reed - Monell Chemical Senses Center
Harm-Jan Westra - University Medical Center Groningen
Michele K Evans - National Institute on Aging
Danish Saleheen - Center for Non-Communicable Diseases
Tamara B Harris - National Institute on Aging
George Dedoussis - Harokopio University of Athens
Gary Curhan - Brigham and Women's Hospital
Michael Stumvoll - IFB Adiposity Diseases
John Beilby - University of Western Australia
Louis R Pasquale - Massachusetts Eye and Ear Infirmary
Bjarke Feenstra - Statens Serum Institut
Stefania Bandinelli - Florence
Jose M Ordovas - Tufts University
Andrew T Chan - Massachusetts General Hospital
Ulrike Peters - Hutchinson
Claes Ohlsson - University of Gothenburg
Christian Gieger - Helmholtz Zentrum München
Nicholas G Martin - QIMR Berghofer Medical Research Institute
Melanie Waldenberger - Helmholtz Zentrum München
David S Siscovick - University of Washington
Olli Raitakari - Turku University Hospital
Johan G Eriksson - Helsinki University Central Hospital, Unit of General Practice, Helsinki, Finland
Paul Mitchell - University of Sydney
David J Hunter - Program in Genetic Epidemiology and Statistical Genetics, Harvard School of Public Health, Boston, Massachusetts, USA
Peter Kraft - Program in Genetic Epidemiology and Statistical Genetics, Harvard School of Public Health, Boston, Massachusetts, USA
Eric B Rimm - Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, USA
Dorret I Boomsma - University of Amsterdam
Ingrid B Borecki - Washington University School of Medicine, Department of Genetics, Division of Statistical Genomics, St Louis, Missouri, USA
Ruth Jf Loos - Icahn School of Medicine at Mount Sinai
Nicholas J Wareham - University of Cambridge
Peter Vollenweider - University of Lausanne
Neil Caporaso - Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, Maryland, USA
Hans Jörgen Grabe - Helios
Marian L Neuhouser - Hutchinson
Bruce Hr Wolffenbuttel - University Medical Center Groningen
Frank B Hu - Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, USA
Elina Hyppönen - South Australian Health and Medical Research Institute, Adelaide, Australia
Marjo-Riitta Järvelin - Oulu University Hospital
L Adrienne Cupples - Framingham Heart Study
Paul W Franks - Umeå University
Paul M Ridker - Brigham and Women's Hospital
Cornelia M van Duijn - Netherlands Consortium for Healthy Ageing
Gerardo Heiss - University of North Carolina at Chapel Hill
Andres Metspalu - University of Tartu
Kari E North - University of North Carolina at Chapel Hill
Erik Ingelsson - University of Oxford
Jennifer A Nettleton - The University of Texas Health Science Center at Houston
Rob M van Dam - Duke-NUS Medical School
Daniel I Chasman - Brigham and Women's Hospital
North American Brain Expression Consortium (NABEC)
Publication Details: Molecular psychiatry, Vol.20(5), pp.647-656
Grant note: G0401527 / Medical Research Council R01 HL120393 / NHLBI NIH HHS MC_UU_12015/1 / Medical Research Council MC_UU_12015/5 / Medical Research Council RG/13/13/30194 / British Heart Foundation U01 HG004728 / NHGRI NIH HHS MR/L003120/1 / Medical Research Council MC_UP_A100_1003 / Medical Research Council R01 HL105756 / NHLBI NIH HHS P60 AA011998 / NIAAA NIH HHS 090532 / Wellcome Trust R01 NS041509 / NINDS NIH HHS R01 HL117078 / NHLBI NIH HHS R01 EY015473 / NEI NIH HHS R01 NS075321 / NINDS NIH HHS 14136 / Cancer Research UK MC_U106179471 / Medical Research Council UM1 CA182913 / NCI NIH HHS RG/08/014/24067 / British Heart Foundation P50 HL105185 / NHLBI NIH HHS G1000143 / Medical Research Council
Identifiers: 9937632408331
Academic Unit: King Abdulaziz University
Language: English
Resource Type: Journal article