Non-additive genome-wide association scan reveals a new gene associated with habitual coffee consumption

Nicola Pirastu, Maarten Kooyman, Antonietta Robino, Ashley Van Der Spek, Luciano Navarini, Najaf Amin, Lennart C. Karssen, Cornelia M. Van Duijn, Paolo Gasparini

Research output: Contribution to journalArticle

Abstract

Coffee is one of the most consumed beverages world-wide and one of the primary sources of caffeine intake. Given its important health and economic impact, the underlying genetics of its consumption has been widely studied. Despite these efforts, much has still to be uncovered. In particular, the use of non-additive genetic models may uncover new information about the genetic variants driving coffee consumption. We have conducted a genome-wide association study in two Italian populations using additive, recessive and dominant models for analysis. This has uncovered a significant association in the PDSS2 gene under the recessive model that has been replicated in an independent cohort from the Netherlands (ERF). The identified gene has been shown to negatively regulate the expression of the caffeine metabolism genes and can thus be linked to coffee consumption. Further bioinformatics analysis of eQTL and histone marks from Roadmap data has evidenced a possible role of the identified SNPs in regulating PDSS2 gene expression through enhancers present in its intron. Our results highlight a novel gene which regulates coffee consumption by regulating the expression of the genes linked to caffeine metabolism. Further studies will be needed to clarify the biological mechanism which links PDSS2 and coffee consumption.

Original languageEnglish
Article number31590
JournalScientific Reports
Volume6
DOIs
Publication statusPublished - Aug 25 2016

ASJC Scopus subject areas

  • General

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    Pirastu, N., Kooyman, M., Robino, A., Van Der Spek, A., Navarini, L., Amin, N., Karssen, L. C., Van Duijn, C. M., & Gasparini, P. (2016). Non-additive genome-wide association scan reveals a new gene associated with habitual coffee consumption. Scientific Reports, 6, [31590]. https://doi.org/10.1038/srep31590