A genome-wide association study in the Japanese population identifies the 12q24 locus for habitual coffee consumption: The J-MICC Study

Hiroko Nakagawa-Senda, Tsuyoshi Hachiya, Atsushi Shimizu, Satoyo Hosono, Isao Oze, Miki Watanabe, Keitaro Matsuo, Hidemi Ito, Megumi Hara, Yuichiro Nishida, Kaori Endoh, Kiyonori Kuriki, Sakurako Katsuura-Kamano, Kokichi Arisawa, Yora Nindita, Rie Ibusuki, Sadao Suzuki, Akihiro Hosono, Haruo Mikami, Yohko NakamuraNaoyuki Takashima, Yasuyuki Nakamura, Nagato Kuriyama, Etsuko Ozaki, Norihiro Furusyo, Hiroaki Ikezaki, Masahiro Nakatochi, Tae Sasakabe, Sayo Kawai, Rieko Okada, Asahi Hishida, Mariko Naito, Kenji Wakai, Yukihide Momozawa, Michiaki Kubo, Hideo Tanaka

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Abstract

Coffee is one of the most widely consumed beverages worldwide, and its role in human health has received much attention. Although genome-wide association studies (GWASs) have investigated genetic variants associated with coffee consumption in European populations, no such study has yet been conducted in an Asian population. Here, we conducted a GWAS to identify common genetic variations that affected coffee consumption in a Japanese population of 11,261 participants recruited as a part of the Japan Multi-Institutional Collaborative Cohort (J-MICC) study. Coffee consumption was collected using a self-administered questionnaire, and converted from categories to cups/day. In the discovery stage (n = 6,312), we found 2 independent loci (12q24.12-13 and 5q33.3) that met suggestive significance (P < 1 × 10-6). In the replication stage (n = 4,949), the lead variant for the 12q24.12-13 locus (rs2074356) was significantly associated with habitual coffee consumption (P = 2.2 × 10-6), whereas the lead variant for the 5q33.3 locus (rs1957553) was not (P = 0.53). A meta-analysis of the discovery and replication populations, and the combined analysis using all subjects, revealed that rs2074356 achieved genome-wide significance (P = 2.2 × 10-16 for a meta-analysis). These findings indicate that the 12q24.12-13 locus is associated with coffee consumption among a Japanese population.

Original languageEnglish
Article number1493
JournalScientific reports
Volume8
Issue number1
DOIs
Publication statusPublished - 01-12-2018

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    Nakagawa-Senda, H., Hachiya, T., Shimizu, A., Hosono, S., Oze, I., Watanabe, M., Matsuo, K., Ito, H., Hara, M., Nishida, Y., Endoh, K., Kuriki, K., Katsuura-Kamano, S., Arisawa, K., Nindita, Y., Ibusuki, R., Suzuki, S., Hosono, A., Mikami, H., ... Tanaka, H. (2018). A genome-wide association study in the Japanese population identifies the 12q24 locus for habitual coffee consumption: The J-MICC Study. Scientific reports, 8(1), [1493]. https://doi.org/10.1038/s41598-018-19914-w