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Whole Exome Sequencing Study Identifies Novel Rare Risk Variants for Habitual Coffee Consumption Involved in Olfactory Receptor and Hyperphagia

Habitual coffee consumption is an addictive behavior with unknown genetic variations and has raised public health issues about its potential health-related outcomes. We performed exome-wide association studies to identify rare risk variants contributing to habitual coffee consumption utilizing the n...

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Autores principales: Cheng, Bolun, Pan, Chuyu, Cheng, Shiqiang, Meng, Peilin, Liu, Li, Wei, Wenming, Yang, Xuena, Jia, Yumeng, Wen, Yan, Zhang, Feng
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9607528/
https://www.ncbi.nlm.nih.gov/pubmed/36297015
http://dx.doi.org/10.3390/nu14204330
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author Cheng, Bolun
Pan, Chuyu
Cheng, Shiqiang
Meng, Peilin
Liu, Li
Wei, Wenming
Yang, Xuena
Jia, Yumeng
Wen, Yan
Zhang, Feng
author_facet Cheng, Bolun
Pan, Chuyu
Cheng, Shiqiang
Meng, Peilin
Liu, Li
Wei, Wenming
Yang, Xuena
Jia, Yumeng
Wen, Yan
Zhang, Feng
author_sort Cheng, Bolun
collection PubMed
description Habitual coffee consumption is an addictive behavior with unknown genetic variations and has raised public health issues about its potential health-related outcomes. We performed exome-wide association studies to identify rare risk variants contributing to habitual coffee consumption utilizing the newly released UK Biobank exome dataset (n = 200,643). A total of 34,761 qualifying variants were imported into SKAT to conduct gene-based burden and robust tests with minor allele frequency <0.01, adjusting the polygenic risk scores (PRS) of coffee intake to exclude the effect of common coffee-related polygenic risk. The gene-based burden and robust test of the exonic variants found seven exome-wide significant associations, such as OR2G2 (P(SKAT) = 1.88 × 10(−9), P(SKAT-Robust) = 2.91 × 10(−17)), VEZT1 (P(SKAT) = 3.72 × 10(−7), P(SKAT-Robust) = 1.41 × 10(−7)), and IRGC (P(SKAT) = 2.92 × 10(−5), P(SKAT-Robust) = 1.07 × 10(−7)). These candidate genes were verified in the GWAS summary data of coffee intake, such as rs12737801 (p = 0.002) in OR2G2, and rs34439296 (p = 0.008) in IRGC. This study could help to extend genetic insights into the pathogenesis of coffee addiction, and may point to molecular mechanisms underlying health effects of habitual coffee consumption.
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spelling pubmed-96075282022-10-28 Whole Exome Sequencing Study Identifies Novel Rare Risk Variants for Habitual Coffee Consumption Involved in Olfactory Receptor and Hyperphagia Cheng, Bolun Pan, Chuyu Cheng, Shiqiang Meng, Peilin Liu, Li Wei, Wenming Yang, Xuena Jia, Yumeng Wen, Yan Zhang, Feng Nutrients Article Habitual coffee consumption is an addictive behavior with unknown genetic variations and has raised public health issues about its potential health-related outcomes. We performed exome-wide association studies to identify rare risk variants contributing to habitual coffee consumption utilizing the newly released UK Biobank exome dataset (n = 200,643). A total of 34,761 qualifying variants were imported into SKAT to conduct gene-based burden and robust tests with minor allele frequency <0.01, adjusting the polygenic risk scores (PRS) of coffee intake to exclude the effect of common coffee-related polygenic risk. The gene-based burden and robust test of the exonic variants found seven exome-wide significant associations, such as OR2G2 (P(SKAT) = 1.88 × 10(−9), P(SKAT-Robust) = 2.91 × 10(−17)), VEZT1 (P(SKAT) = 3.72 × 10(−7), P(SKAT-Robust) = 1.41 × 10(−7)), and IRGC (P(SKAT) = 2.92 × 10(−5), P(SKAT-Robust) = 1.07 × 10(−7)). These candidate genes were verified in the GWAS summary data of coffee intake, such as rs12737801 (p = 0.002) in OR2G2, and rs34439296 (p = 0.008) in IRGC. This study could help to extend genetic insights into the pathogenesis of coffee addiction, and may point to molecular mechanisms underlying health effects of habitual coffee consumption. MDPI 2022-10-16 /pmc/articles/PMC9607528/ /pubmed/36297015 http://dx.doi.org/10.3390/nu14204330 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Cheng, Bolun
Pan, Chuyu
Cheng, Shiqiang
Meng, Peilin
Liu, Li
Wei, Wenming
Yang, Xuena
Jia, Yumeng
Wen, Yan
Zhang, Feng
Whole Exome Sequencing Study Identifies Novel Rare Risk Variants for Habitual Coffee Consumption Involved in Olfactory Receptor and Hyperphagia
title Whole Exome Sequencing Study Identifies Novel Rare Risk Variants for Habitual Coffee Consumption Involved in Olfactory Receptor and Hyperphagia
title_full Whole Exome Sequencing Study Identifies Novel Rare Risk Variants for Habitual Coffee Consumption Involved in Olfactory Receptor and Hyperphagia
title_fullStr Whole Exome Sequencing Study Identifies Novel Rare Risk Variants for Habitual Coffee Consumption Involved in Olfactory Receptor and Hyperphagia
title_full_unstemmed Whole Exome Sequencing Study Identifies Novel Rare Risk Variants for Habitual Coffee Consumption Involved in Olfactory Receptor and Hyperphagia
title_short Whole Exome Sequencing Study Identifies Novel Rare Risk Variants for Habitual Coffee Consumption Involved in Olfactory Receptor and Hyperphagia
title_sort whole exome sequencing study identifies novel rare risk variants for habitual coffee consumption involved in olfactory receptor and hyperphagia
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9607528/
https://www.ncbi.nlm.nih.gov/pubmed/36297015
http://dx.doi.org/10.3390/nu14204330
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