Genome-wide association analysis of excessive daytime sleepiness identifies 42 loci that suggest phenotypic subgroups

Excessive daytime sleepiness (EDS) affects 10-20% of the population and is associated with substantial functional deficits. We identified 42 loci for self-reported EDS in GWAS of 452,071 individuals from the UK Biobank, with enrichment for genes expressed in brain tissues and in neuronal transmission pathways. We confirmed the aggregate effect of a genetic risk score of 42 SNPs on EDS in independent Scandinavian cohorts and on other sleep disorders (restless leg syndrome, insomnia) and sleep traits (duration, chronotype, accelerometer-derived sleep efficiency and daytime naps or inactivity). Strong genetic correlations were also seen with obesity, coronary heart disease, psychiatric diseases, cognitive traits and reproductive ageing. EDS variants clustered into two predominant composite phenotypes - sleep propensity and sleep fragmentation - with the former showing stronger evidence for enriched expression in central nervous system tissues, suggesting two unique mechanistic pathways. Mendelian randomization analysis indicated that higher BMI is causally associated with EDS risk, but EDS does not appear to causally influence BMI.

[1]  Gad Getz,et al.  Type 2 diabetes genetic loci informed by multi-trait associations point to disease mechanisms and subtypes: A soft clustering analysis , 2018, PLoS medicine.

[2]  Chun Jimmie Ye,et al.  Narcolepsy risk loci are enriched in immune cells and suggest autoimmune modulation of the T cell receptor repertoire , 2018, bioRxiv.

[3]  Sebastiaan Overeem,et al.  Exploring the clinical features of narcolepsy type 1 versus narcolepsy type 2 from European Narcolepsy Network database with machine learning , 2018, Scientific Reports.

[4]  A. Pack,et al.  Candidate gene analysis in the São Paulo Epidemiologic Sleep Study (EPISONO) shows an association of variant in PDE4D and sleepiness. , 2018, Sleep medicine.

[5]  Jack Bowden,et al.  Improving the visualization, interpretation and analysis of two-sample summary data Mendelian randomization via the Radial plot and Radial regression , 2018, International journal of epidemiology.

[6]  Samuel E. Jones,et al.  Genome-wide association analyses of chronotype in 697,828 individuals provides new insights into circadian rhythms in humans and links to disease , 2018, bioRxiv.

[7]  Max A. Little,et al.  GWAS in 446,118 European adults identifies 78 genetic loci for self-reported habitual sleep duration supported by accelerometer-derived estimates , 2018, bioRxiv.

[8]  Samuel E. Jones,et al.  Genetic studies of accelerometer-based sleep measures in 85,670 individuals yield new insights into human sleep behaviour , 2018, bioRxiv.

[9]  Valeriia Haberland,et al.  The MR-Base platform supports systematic causal inference across the human phenome , 2018, eLife.

[10]  Max A. Little,et al.  Biological and clinical insights from genetics of insomnia symptoms , 2019, Nature Genetics.

[11]  A I Pack,et al.  Estimating sleep parameters using an accelerometer without sleep diary , 2018, Scientific Reports.

[12]  Alex H. Wagner,et al.  DGIdb 3.0: a redesign and expansion of the drug–gene interaction database , 2017, bioRxiv.

[13]  D. A. Wellman,et al.  Multiethnic Meta‐Analysis Identifies RAI1 as a Possible Obstructive Sleep Apnea‐related Quantitative Trait Locus in Men , 2017, American journal of respiratory cell and molecular biology.

[14]  V. Salomaa,et al.  Cohort Profile: The National FINRISK Study. , 2018, International journal of epidemiology.

[15]  Erdogan Taskesen,et al.  Functional mapping and annotation of genetic associations with FUMA , 2017, Nature Communications.

[16]  Lars G Fritsche,et al.  Efficiently controlling for case-control imbalance and sample relatedness in large-scale genetic association studies , 2017, Nature Genetics.

[17]  Stephen H. Bell,et al.  Identification of novel risk loci for restless legs syndrome in genome-wide association studies in individuals of European ancestry , 2022 .

[18]  Lloyd T. Elliott,et al.  The genetic basis of human brain structure and function: 1,262 genome-wide associations found from 3,144 GWAS of multimodal brain imaging phenotypes from 9,707 UK Biobank participants , 2017, bioRxiv.

[19]  M. Perola,et al.  Genetics of vaccination-related narcolepsy , 2017, bioRxiv.

[20]  P. Donnelly,et al.  Genome-wide genetic data on ~500,000 UK Biobank participants , 2017, bioRxiv.

[21]  Jacob K. Asiedu,et al.  The Drug Repurposing Hub: a next-generation drug library and information resource , 2017, Nature Medicine.

[22]  E. Arrigoni,et al.  Neural Circuitry of Wakefulness and Sleep , 2017, Neuron.

[23]  Í. Berber,et al.  Lack of association between MAOA-uVNTR variants and excessive daytime sleepiness , 2017, Neurological Sciences.

[24]  Nils Y. Hammerla,et al.  Large Scale Population Assessment of Physical Activity Using Wrist Worn Accelerometers: The UK Biobank Study , 2017, PloS one.

[25]  S. Tsai Chronic obstructive pulmonary disease and sleep related disorders , 2016, Current opinion in pulmonary medicine.

[26]  Xiaofeng Zhu,et al.  Genome-wide association analyses of sleep disturbance traits identify new loci and highlight shared genetics with neuropsychiatric and metabolic traits , 2016, Nature Genetics.

[27]  T. Spector,et al.  Genome-wide association study of caffeine metabolites provides new insights to caffeine metabolism and dietary caffeine-consumption behavior. , 2016, Human molecular genetics.

[28]  William J. Astle,et al.  Allelic Landscape of Human Blood Cell Trait Variation and Links , 2016 .

[29]  N. Sheehan,et al.  Assessing the suitability of summary data for two-sample Mendelian randomization analyses using MR-Egger regression: the role of the I2 statistic , 2016, International journal of epidemiology.

[30]  Andres Metspalu,et al.  Genome-Wide Association Analyses in 128,266 Individuals Identifies New Morningness and Sleep Duration Loci , 2016, PLoS genetics.

[31]  Joseph K. Pickrell,et al.  Detection and interpretation of shared genetic influences on 42 human traits , 2015, Nature Genetics.

[32]  Andrew D. Rouillard,et al.  Enrichr: a comprehensive gene set enrichment analysis web server 2016 update , 2016, Nucleic Acids Res..

[33]  Tom R. Gaunt,et al.  LD Hub: a centralized database and web interface to perform LD score regression that maximizes the potential of summary level GWAS data for SNP heritability and genetic correlation analysis , 2016, bioRxiv.

[34]  N. Eriksson,et al.  GWAS of 89,283 individuals identifies genetic variants associated with self-reporting of being a morning person , 2016, Nature Communications.

[35]  Daniel Marbach,et al.  Fast and Rigorous Computation of Gene and Pathway Scores from SNP-Based Summary Statistics , 2016, PLoS Comput. Biol..

[36]  Y. Wada,et al.  SLC39A8 Deficiency: A Disorder of Manganese Transport and Glycosylation. , 2015, American journal of human genetics.

[37]  Michael Catt,et al.  A Novel, Open Access Method to Assess Sleep Duration Using a Wrist-Worn Accelerometer , 2015, PloS one.

[38]  J. Woo,et al.  A Randomized Controlled Study to Examine the Effect of a Lifestyle Modification Program in OSA. , 2015, Chest.

[39]  Yakir A Reshef,et al.  Partitioning heritability by functional annotation using genome-wide association summary statistics , 2015, Nature Genetics.

[40]  M. Daly,et al.  An Atlas of Genetic Correlations across Human Diseases and Traits , 2015, Nature Genetics.

[41]  A. Gloyn,et al.  Glucokinase regulatory protein: complexity at the crossroads of triglyceride and glucose metabolism , 2015, Current opinion in lipidology.

[42]  Joris M. Mooij,et al.  MAGMA: Generalized Gene-Set Analysis of GWAS Data , 2015, PLoS Comput. Biol..

[43]  E. Bixler,et al.  Natural history of excessive daytime sleepiness: role of obesity, weight loss, depression, and sleep propensity. , 2015, Sleep.

[44]  G. Mensah,et al.  NHLBI perspectives on the growth of heart, lung, blood and sleep conditions in Africa: global and domestic insights, challenges and opportunities , 2015, Cardiovascular journal of Africa.

[45]  P. Elliott,et al.  UK Biobank: An Open Access Resource for Identifying the Causes of a Wide Range of Complex Diseases of Middle and Old Age , 2015, PLoS medicine.

[46]  Carson C Chow,et al.  Second-generation PLINK: rising to the challenge of larger and richer datasets , 2014, GigaScience.

[47]  M. Daly,et al.  Genetic and Epigenetic Fine-Mapping of Causal Autoimmune Disease Variants , 2014, Nature.

[48]  B. Berger,et al.  Efficient Bayesian mixed model analysis increases association power in large cohorts , 2014, Nature Genetics.

[49]  J. J. Wang,et al.  Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption , 2014, Molecular Psychiatry.

[50]  T. Lallukka,et al.  Sleep and sickness absence: a nationally representative register-based follow-up study. , 2014, Sleep.

[51]  Joss Langford,et al.  Autocalibration of accelerometer data for free-living physical activity assessment using local gravity and temperature: an evaluation on four continents , 2014, Journal of applied physiology.

[52]  K. Rexrode,et al.  Daytime sleepiness and risk of coronary heart disease and stroke: results from the Nurses' Health Study II. , 2014, Sleep medicine.

[53]  A. Adan,et al.  A functional polymorphism in the promoter region of MAOA gene is associated with daytime sleepiness in healthy subjects , 2014, Journal of the Neurological Sciences.

[54]  J. Monti,et al.  The role of serotonin 5-HT7 receptor in regulating sleep and wakefulness , 2014, Reviews in the neurosciences.

[55]  D. Barford,et al.  KSR2 Mutations Are Associated with Obesity, Insulin Resistance, and Impaired Cellular Fuel Oxidation , 2013, Cell.

[56]  K. Hveem,et al.  COHORT PROFILE Cohort Profile : The HUNT Study , Norway , 2013 .

[57]  N. Wray,et al.  A genome‐wide association study of sleep habits and insomnia , 2013, American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics.

[58]  Ellen T. Gelfand,et al.  The Genotype-Tissue Expression (GTEx) project , 2013, Nature Genetics.

[59]  Alexander Horsch,et al.  Separating Movement and Gravity Components in an Acceleration Signal and Implications for the Assessment of Human Daily Physical Activity , 2013, PloS one.

[60]  E. Mignot,et al.  Genome-wide association study of HLA-DQB1*06:02 negative essential hypersomnia , 2013, PeerJ.

[61]  Avi Ma'ayan,et al.  Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool , 2013, BMC Bioinformatics.

[62]  J. Wysocka,et al.  Modification of enhancer chromatin: what, how, and why? , 2013, Molecular cell.

[63]  C. Gieger,et al.  ImmunoChip Study Implicates Antigen Presentation to T Cells in Narcolepsy , 2013, PLoS genetics.

[64]  Jun Lu,et al.  How do the basal ganglia regulate sleep–wake behavior? , 2012, Trends in Neurosciences.

[65]  J. Steier,et al.  Excessive daytime sleepiness in sleep disorders. , 2012, Journal of thoracic disease.

[66]  Shambhu Bhat,et al.  CACNA1C (Cav1.2) in the pathophysiology of psychiatric disease , 2012, Progress in Neurobiology.

[67]  H. Jinnah,et al.  Sleep Fragmentation and Motor Restlessness in a Drosophila Model of Restless Legs Syndrome , 2012, Current Biology.

[68]  P. Visscher,et al.  Conditional and joint multiple-SNP analysis of GWAS summary statistics identifies additional variants influencing complex traits , 2012, Nature Genetics.

[69]  Meena Kumari,et al.  Sleep epidemiology--a rapidly growing field. , 2011, International journal of epidemiology.

[70]  S. Thompson,et al.  Bias in causal estimates from Mendelian randomization studies with weak instruments , 2011, Statistics in medicine.

[71]  J. Duan,et al.  Genome-wide approaches to schizophrenia , 2010, Brain Research Bulletin.

[72]  Sebastiaan Overeem,et al.  Genome-wide association study identifies new HLA class II haplotypes strongly protective against narcolepsy , 2010, Nature Genetics.

[73]  G. Gigli,et al.  Daytime sleepiness is associated with dementia and cognitive decline in older Italian adults: a population-based study. , 2010, Sleep medicine.

[74]  C. McCrae,et al.  Tackling sleeplessness: Psychological treatment options for insomnia , 2010, Nature and science of sleep.

[75]  M. Qiu,et al.  Basal ganglia control of sleep–wake behavior and cortical activation , 2010, The European journal of neuroscience.

[76]  Daniel A. Cohen,et al.  Uncovering Residual Effects of Chronic Sleep Loss on Human Performance , 2010, Science Translational Medicine.

[77]  Robert E. Lewis,et al.  KSR2 is an essential regulator of AMP kinase, energy expenditure, and insulin sensitivity. , 2009, Cell metabolism.

[78]  C. Gieger,et al.  Narcolepsy is strongly associated with the TCR alpha locus , 2009, Nature Genetics.

[79]  [Sleep quality and daytime sleepiness in schizophrenia spectrum disorders during antipsychotic treatment]. , 2009, Psychiatria polska.

[80]  Emmanuel Mignot,et al.  Variant between CPT1B and CHKB associated with susceptibility to narcolepsy , 2008, Nature Genetics.

[81]  M. Ohayon From wakefulness to excessive sleepiness: what we know and still need to know. , 2008, Sleep medicine reviews.

[82]  G. O'Connor,et al.  Genome-wide association of sleep and circadian phenotypes , 2007, BMC Medical Genetics.

[83]  Charles J. Bae,et al.  The assessment, diagnosis, and treatment of excessive sleepiness: practical considerations for the psychiatrist. , 2007, Psychiatry (Edgmont (Pa. : Township)).

[84]  D. Nutt GABAA receptors: subtypes, regional distribution, and function. , 2006, Journal of clinical sleep medicine : JCSM : official publication of the American Academy of Sleep Medicine.

[85]  E. Bixler,et al.  Excessive daytime sleepiness in a general population sample: the role of sleep apnea, age, obesity, diabetes, and depression. , 2005, The Journal of clinical endocrinology and metabolism.

[86]  D. Dinges,et al.  Individual differences in adult human sleep and wakefulness: Leitmotif for a research agenda. , 2005, Sleep.

[87]  D. Dinges,et al.  Systematic interindividual differences in neurobehavioral impairment from sleep loss: evidence of trait-like differential vulnerability. , 2004, Sleep.

[88]  Seppo Koskinen,et al.  HEALTH AND FUNCTIONAL CAPACITY IN FINLAND Baseline Results of the Health 2000 Health Examination Survey , 2004 .

[89]  M. Ohayon,et al.  Daytime sleepiness and cognitive impairment in the elderly population. , 2002, Archives of internal medicine.

[90]  P. Lloberes,et al.  Self-reported sleepiness while driving as a risk factor for traffic accidents in patients with obstructive sleep apnoea syndrome and in non-apnoeic snorers. , 2000, Respiratory medicine.

[91]  Emmanuel Mignot,et al.  The Sleep Disorder Canine Narcolepsy Is Caused by a Mutation in the Hypocretin (Orexin) Receptor 2 Gene , 1999, Cell.

[92]  T. Roth,et al.  Sleep disturbance and psychiatric disorders: A longitudinal epidemiological study of young Adults , 1996, Biological Psychiatry.

[93]  D. Dijk,et al.  Circadian and sleep/wake dependent aspects of subjective alertness and cognitive performance , 1992, Journal of sleep research.