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

The Coffee; Caffeine Genetics Consortium; M.C. Cornelis; E.M. Byrne; T. Esko; M.A. Nalls; A Ganna; N Paynter; K L Monda; N Amin; K Fischer; F Renstrom; J S Ngwa; V Huikari; A Cavadino; I M Nolte; A Teumer; K Yu; P Marques-Vidal; R Rawal; A Manichaikul; M K Wojczynski; J M Vink; J H Zhao; G Burlutsky; J Lahti; V Mikkilä; R N Lemaitre; J Eriksson; S K Musani; T Tanaka; F Geller; J Luan; J Hui; R Mägi; M Dimitriou; M E Garcia; W-K Ho; M J Wright; L M Rose; P K E Magnusson; N L Pedersen; D Couper; B A Oostra; A Hofman; M A Ikram; H W Tiemeier; A G Uitterlinden; F J A van Rooij; I Barroso; I Johansson; International Parkinson's Disease Genomics Consortium (IPDGC); North American Brain Expression Consortium (NABEC); UK Brain Expression Consortium (UKBEC); Karen Morrison

doi:10.1038/mp.2014.107

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

The Coffee, Caffeine Genetics Consortium, M.C. Cornelis, E.M. Byrne, T. Esko, M.A. Nalls, A Ganna, N Paynter, K L Monda, N Amin, K Fischer, F Renstrom, J S Ngwa, V Huikari, A Cavadino, I M Nolte, A Teumer, K Yu, P Marques-Vidal, R RawalA Manichaikul, M K Wojczynski, J M Vink, J H Zhao, G Burlutsky, J Lahti, V Mikkilä, R N Lemaitre, J Eriksson, S K Musani, T Tanaka, F Geller, J Luan, J Hui, R Mägi, M Dimitriou, M E Garcia, W-K Ho, M J Wright, L M Rose, P K E Magnusson, N L Pedersen, D Couper, B A Oostra, A Hofman, M A Ikram, H W Tiemeier, A G Uitterlinden, F J A van Rooij, I Barroso, I Johansson, International Parkinson's Disease Genomics Consortium (IPDGC), North American Brain Expression Consortium (NABEC), UK Brain Expression Consortium (UKBEC), Karen Morrison

School of Medicine, Dentistry and Biomedical Sciences

Research output: Contribution to journal › Article › peer-review

215 Citations (Scopus)

Abstract

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

Original language	English
Pages (from-to)	647-656
Number of pages	10
Journal	Molecular Psychiatry
Volume	20
Issue number	5
DOIs	https://doi.org/10.1038/mp.2014.107
Publication status	Published - 01 May 2015

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Coffee, T., Consortium, C. G., Cornelis, M. C., Byrne, E. M., Esko, T., Nalls, M. A., Ganna, A., Paynter, N., Monda, K. L., Amin, N., Fischer, K., Renstrom, F., Ngwa, J. S., Huikari, V., Cavadino, A., Nolte, I. M., Teumer, A., Yu, K., Marques-Vidal, P., ... Morrison, K. (2015). Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption. Molecular Psychiatry, 20(5), 647-656. https://doi.org/10.1038/mp.2014.107

@article{79cbdb0417f541cf98cf61c7293e1665,

title = "Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption",

abstract = "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",

author = "The Coffee and Consortium, {Caffeine Genetics} and M.C. Cornelis and E.M. Byrne and T. Esko and M.A. Nalls and A Ganna and N Paynter and Monda, {K L} and N Amin and K Fischer and F Renstrom and Ngwa, {J S} and V Huikari and A Cavadino and Nolte, {I M} and A Teumer and K Yu and P Marques-Vidal and R Rawal and A Manichaikul and Wojczynski, {M K} and Vink, {J M} and Zhao, {J H} and G Burlutsky and J Lahti and V Mikkil{\"a} and Lemaitre, {R N} and J Eriksson and Musani, {S K} and T Tanaka and F Geller and J Luan and J Hui and R M{\"a}gi and M Dimitriou and Garcia, {M E} and W-K Ho and Wright, {M J} and Rose, {L M} and Magnusson, {P K E} and Pedersen, {N L} and D Couper and Oostra, {B A} and A Hofman and Ikram, {M A} and Tiemeier, {H W} and Uitterlinden, {A G} and {van Rooij}, {F J A} and I Barroso and I Johansson and (IPDGC), {International Parkinson's Disease Genomics Consortium} and (NABEC), {North American Brain Expression Consortium} and (UKBEC), {UK Brain Expression Consortium} and Karen Morrison",

year = "2015",

month = may,

day = "1",

doi = "10.1038/mp.2014.107",

language = "English",

volume = "20",

pages = "647--656",

journal = "Molecular Psychiatry",

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Coffee, T, Consortium, CG, Cornelis, MC, Byrne, EM, Esko, T, Nalls, MA, Ganna, A, Paynter, N, Monda, KL, Amin, N, Fischer, K, Renstrom, F, Ngwa, JS, Huikari, V, Cavadino, A, Nolte, IM, Teumer, A, Yu, K, Marques-Vidal, P, Rawal, R, Manichaikul, A, Wojczynski, MK, Vink, JM, Zhao, JH, Burlutsky, G, Lahti, J, Mikkilä, V, Lemaitre, RN, Eriksson, J, Musani, SK, Tanaka, T, Geller, F, Luan, J, Hui, J, Mägi, R, Dimitriou, M, Garcia, ME, Ho, W-K, Wright, MJ, Rose, LM, Magnusson, PKE, Pedersen, NL, Couper, D, Oostra, BA, Hofman, A, Ikram, MA, Tiemeier, HW, Uitterlinden, AG, van Rooij, FJA, Barroso, I, Johansson, I, (IPDGC), IPDGC, (NABEC), NABEC, (UKBEC), UKBEC & Morrison, K 2015, 'Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption', Molecular Psychiatry, vol. 20, no. 5, pp. 647-656. https://doi.org/10.1038/mp.2014.107

TY - JOUR

T1 - Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption

AU - Coffee, The

AU - Consortium, Caffeine Genetics

AU - Cornelis, M.C.

AU - Byrne, E.M.

AU - Esko, T.

AU - Nalls, M.A.

AU - Ganna, A

AU - Paynter, N

AU - Monda, K L

AU - Amin, N

AU - Fischer, K

AU - Renstrom, F

AU - Ngwa, J S

AU - Huikari, V

AU - Cavadino, A

AU - Nolte, I M

AU - Teumer, A

AU - Yu, K

AU - Marques-Vidal, P

AU - Rawal, R

AU - Manichaikul, A

AU - Wojczynski, M K

AU - Vink, J M

AU - Zhao, J H

AU - Burlutsky, G

AU - Lahti, J

AU - Mikkilä, V

AU - Lemaitre, R N

AU - Eriksson, J

AU - Musani, S K

AU - Tanaka, T

AU - Geller, F

AU - Luan, J

AU - Hui, J

AU - Mägi, R

AU - Dimitriou, M

AU - Garcia, M E

AU - Ho, W-K

AU - Wright, M J

AU - Rose, L M

AU - Magnusson, P K E

AU - Pedersen, N L

AU - Couper, D

AU - Oostra, B A

AU - Hofman, A

AU - Ikram, M A

AU - Tiemeier, H W

AU - Uitterlinden, A G

AU - van Rooij, F J A

AU - Barroso, I

AU - Johansson, I

AU - (IPDGC), International Parkinson's Disease Genomics Consortium

AU - (NABEC), North American Brain Expression Consortium

AU - (UKBEC), UK Brain Expression Consortium

AU - Morrison, Karen

PY - 2015/5/1

Y1 - 2015/5/1

N2 - 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

AB - 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

U2 - 10.1038/mp.2014.107

DO - 10.1038/mp.2014.107

M3 - Article

SN - 1359-4184

VL - 20

SP - 647

EP - 656

JO - Molecular Psychiatry

JF - Molecular Psychiatry

IS - 5

ER -

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

Abstract

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