GWAS and colocalization analyses implicate carotid intima-media thickness and carotid plaque loci in cardiovascular outcomes.

Nora Franceschini, Claudia Giambartolomei, Paul S de Vries, Chris Finan, Joshua C Bis, Rachael P Huntley, Ruth C Lovering, Salman M Tajuddin, Thomas W Winkler, Misa Graff, Maryam Kavousi, Caroline Dale, Albert V Smith, Edith Hofer, Elisabeth M van Leeuwen, Ilja M Nolte, Lingyi Lu, Markus Scholz, Muralidharan Sargurupremraj, Niina Pitkänen, Oscar Franzén, Peter K Joshi, Raymond Noordam, Riccardo E Marioni, Shih-Jen Hwang, Solomon K Musani, Ulf Schminke, Walter Palmas, Aaron Isaacs, Adolfo Correa, Alan B Zonderman, Albert Hofman, Alexander Teumer, Amanda J Cox, André G Uitterlinden, Andrew Wong, Andries J Smit, Anne B Newman, Annie Britton, Arno Ruusalepp, Bengt Sennblad, Bo Hedblad, Bogdan Pasaniuc, Brenda W Penninx, Carl D Langefeld, Christina L Wassel, Christophe Tzourio, Cristiano Fava, Damiano Baldassarre, Daniel H O'Leary, Daniel Teupser, Diana Kuh, Elena Tremoli, Elmo Mannarino, Enzo Grossi, Eric Boerwinkle, Eric E Schadt, Erik Ingelsson, Fabrizio Veglia, Fernando Rivadeneira, Frank Beutner, Ganesh Chauhan, Gerardo Heiss, Harold Snieder, Harry Campbell, Henry Völzke, Hugh S Markus, Ian J Deary, J Wouter Jukema, Jacqueline de Graaf, Jacqueline Price, Janne Pott, Jemma C Hopewell, Jingjing Liang, Joachim Thiery, Jorgen Engmann, Karl Gertow, Kenneth Rice, Kent D Taylor, Klodian Dhana, Lambertus A L M Kiemeney, Lars Lind, Laura M Raffield, Lenore J Launer, Lesca M Holdt, Marcus Dörr, Martin Dichgans, Matthew Traylor, Matthias Sitzer, Meena Kumari, Mika Kivimaki, Mike A Nalls, Olle Melander, Olli Raitakari, Oscar H Franco, Oscar L Rueda-Ochoa, Panos Roussos, Peter H Whincup, Philippe Amouyel, Philippe Giral, Pramod Anugu, Quenna Wong, Rainer Malik, Rainer Rauramaa, Ralph Burkhardt, Rebecca Hardy, Reinhold Schmidt, Renée de Mutsert, Richard W Morris, Rona J Strawbridge, S Goya Wannamethee, Sara Hägg, Sonia Shah, Stela McLachlan, Stella Trompet, Sudha Seshadri, Sudhir Kurl, Susan R Heckbert, Susan Ring, Tamara B Harris, Terho Lehtimäki, Tessel E Galesloot, Tina Shah, Ulf de Faire, Vincent Plagnol, Wayne D Rosamond, Wendy Post, Xiaofeng Zhu, Xiaoling Zhang, Xiuqing Guo, Yasaman Saba, Abbas Dehghan, Adrie Seldenrijk, Alanna C Morrison, Anders Hamsten, Bruce M Psaty, Cornelia M van Duijn, Deborah A Lawlor, Dennis O Mook-Kanamori, Donald W Bowden, Helena Schmidt, James F Wilson, James G Wilson, Jerome I Rotter, Joanna M Wardlaw, John Deanfield, Julian Halcox, Leo-Pekka Lyytikäinen, Markus Loeffler, Michele K Evans, Stéphanie Debette, Steve E Humphries, Uwe Völker, Vilmundur Gudnason, Aroon D Hingorani, Johan L M Björkegren, Juan P Casas, Christopher J O'Donnell

Journal: Nature communications 2019;9(1):5141

PMID: 30510157

Abstract

Carotid artery intima media thickness (cIMT) and carotid plaque are measures of subclinical atherosclerosis associated with ischemic stroke and coronary heart disease (CHD). Here, we undertake meta-analyses of genome-wide association studies (GWAS) in 71,128 individuals for cIMT, and 48,434 individuals for carotid plaque traits. We identify eight novel susceptibility loci for cIMT, one independent association at the previously-identified PINX1 locus, and one novel locus for carotid plaque. Colocalization analysis with nearby vascular expression quantitative loci (cis-eQTLs) derived from arterial wall and metabolic tissues obtained from patients with CHD identifies candidate genes at two potentially additional loci, ADAMTS9 and LOXL4. LD score regression reveals significant genetic correlations between cIMT and plaque traits, and both cIMT and plaque with CHD, any stroke subtype and ischemic stroke. Our study provides insights into genes and tissue-specific regulatory mechanisms linking atherosclerosis both to its functional genomic origins and its clinical consequences in humans.

Address: Department of Epidemiology, University of North Carolina, Chapel Hill, NC, 27516, USA.; Department of Pathology and Laboratory Medicine, University of California (UCLA), Los Angeles, Los Angeles, CA, 90095, USA.; Human Genetics Center, Department of Epidemiology, Human Genetics, and Environmental Sciences, School of Public Health, The University of Texas Health Science Center at Houston, Houston, TX, 77030, USA.; Institute of Cardiovascular Science, University College London, London, WC1 6BT, UK.; Cardiovascular Health Research Unit, Department of Medicine, University of Washington, Seattle, WA, 98101, USA.; Laboratory of Epidemiology and Population Sciences, National Institute on Aging, National Institutes of Health, Baltimore, MD, 20892, USA.; Department of Genetic Epidemiology, University of Regensburg, Regensburg, 93053, Germany.; Department of Epidemiology, Erasmus Medical Center, Rotterdam, 3015, The Netherlands.; Institute of Health Informatics, University College London, London, WC1E 6BT, UK.; Icelandic Heart Association, Kopavogur, IS-201, Iceland.; University of Iceland, Reykjavik, 101, Iceland.; Clinical Division of Neurogeriatrics, Department of Neurology, Medical University of Graz, Graz, 8036, Austria.; Institute for Medical Informatics, Statistics and Documentation, Medical University of Graz, Graz, 8036, Austria.; Department of Epidemiology, University of Groningen, University Medical Center Groningen, Groningen, 3015, The Netherlands.; Department of Biostatistical Sciences, Wake Forest University School of Medicine, Winston-Salem, NC, 27157, USA.; Institute for Medical Informatics, Statistics and Epidemiology, , University of Leipzig, Leipzig, 04107, Germany.; LIFE Research Center for Civilization Diseases, University of Leipzig, Leipzig, 04107, Germany.; Univ. Bordeaux, Inserm, Bordeaux Population Health Research Center, UMR 1219, CHU Bordeaux, F-33000, Bordeaux, France.; Research Centre of Applied and Preventive Cardiovascular Medicine, University of Turku, Turku, 20520, Finland.; Department of Genetics and Genomic Sciences, The Icahn Institute for Genomics and Multiscale Biology Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.; Clinical Gene Networks AB, Stockholm, 104 62, Sweden.; Usher Institute of Population Health Sciences and Informatics, University of Edinburgh, Edinburgh, EH8 9AG, UK.; Department of Internal Medicine, Section of Gerontology and Geriatrics, Leiden University Medical Center, Leiden, 2300, RC, The Netherlands.; Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, EH8 9JZ, UK.; Medical Genetics Section, Centre for Genomic and Experimental Medicine, Institute of Genetics and Molecular Medicine, University of Edinburgh, Edinburgh, EH4 2XU, UK.; Population Sciences Branch, Division of Intramural Research, NHLBI, NIH, Framingham, MA, 01702-5827, USA.; National Heart, Lung and Blood Institute's Intramural Research Program, Framingham Heart Study, Framingham, MA, 01702-5827, USA.; Department of Medicine, University of Mississippi Medical Center, Jackson, MS, 39216, USA.; Department of Neurology, University Medicine Greifswald, Greifswald, 17475, Germany.; Department of Medicine, Columbia University, New York, NY, 10032, USA.; Department of Epidemiology, Erasmus Medical Center, Rotterdam, 3015, The Netherlands.; Department of Biochemistry, Maastricht Centre for Systems Biology (MaCSBio), CARIM School for Cardiovascular Diseases, Maastricht University, Maastricht, 6229, The Netherlands.; Department of Epidemiology, Erasmus Medical Center, Rotterdam, 3015, The Netherlands.; Department of Epidemiology, Harvard T.H. Chan School of Public Health, Boston, MA, 02115, USA.; Institute for Community Medicine, University Medicine Greifswald, Greifswald, 17475, Germany.; DZHK (German Center for Cardiovascular Research), partner site Greifswald, Greifswald, 17475, Germany.; Center for Diabetes Research, Wake Forest School of Medicine, Winston-Salem, NC, 25157, USA.; Menzies Health Institute Queensland, Griffith University, Southport, QLD, 4222, Australia.; Department of Epidemiology, Erasmus Medical Center, Rotterdam, 3015, The Netherlands.; Department of Internal Medicine, Erasmus Medical Center, University Medical Center Rotterdam, Rotterdam, 3015, The Netherlands.; MRC Unit for Lifelong Health and Ageing at UCL, London, WC1E 6BT, UK.; Department of Medicine, University of Groningen, University Medical Center Groningen, Groningen, 2300, The Netherlands.; Department of Epidemiology, and School of Medicine, Division of Geriatric Medicine, University of Pittsburgh, Pittsburgh, PA, 15213, USA.; Department of Epidemiology and Public Health, University College London, London, WC1E 6BT, UK.; Clinical Gene Networks AB, Stockholm, 104 62, Sweden.; Department of Pathophysiology, Institute of Biomedicine and Translation Medicine, University of Tartu, Biomeedikum, Tartu, 51010, Estonia.; Department of Cardiac Surgery, Tartu University Hospital, Tartu, 51010, Estonia.; Cardiovascular Medicine Unit, Department of Medicine Solna, Karolinska Institutet, Stockholm, 17177, Sweden.; Department of Cell and Molecular Biology, National Bioinformatics Infrastructure Sweden, Science for Life Laboratory, Uppsala University, Uppsala, 75108, Sweden.; Department of Clinical Sciences in Malmö, Lund University, Malmö, SE-205 02, Sweden.; Department of Pathology and Laboratory Medicine, University of California (UCLA), Los Angeles, Los Angeles, CA, 90095, USA.; Department of Human Genetics, University of California (UCLA), Los Angeles, CA, 90095, USA.; Department of Psychiatry, EMGO Institute for Health and Care Research and Neuroscience Campus Amsterdam, VU University Medical Center, Amsterdam, 1081, HL, The Netherlands.; Applied Sciences, Premier, Inc., Charlotte, NC, 28277, USA.; Department of Clinical Sciences in Malmö, Lund University, Malmö, SE-205 02, Sweden.; Department of Medicine, University of Verona, Verona, 37134, Italy.; Department of Medical Biotechnology and Translational Medicine, Università di Milano, Milan, 20133, Italy.; Centro Cardiologico Monzino, IRCCS, Milan, 20138, Italy.; St. Elizabeth's Medical Center, Tufts University School of Medicine, Boston, MA, 02135, USA.; LIFE Research Center for Civilization Diseases, University of Leipzig, Leipzig, 04107, Germany.; Institute of Laboratory Medicine, University Hospital Munich, LMU Munich, 80539, Germany.; Centro Cardiologico Monzino, IRCCS, Milan, 20138, Italy.; Dipartimento di Scienze Farmacologiche e Biomolecolari, Università di Milano, Milan, 20133, Italy.; Department of Clinical and Experimental Medicine, Internal Medicine, Angiology and Arteriosclerosis Diseases, University of Perugia, Perugia, 06123, Italy.; Centro Diagnostico Italiano, Milan, 20147, Italy.; Human Genetics Center, Department of Epidemiology, Human Genetics, and Environmental Sciences, School of Public Health, The University of Texas Health Science Center at Houston, Houston, TX, 77030, USA.; Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, 77030-3411, USA.; Department of Medicine, Division of Cardiovascular Medicine, Stanford University School of Medicine, Stanford, CA, 94309, USA.; Department of Medical Sciences, Molecular Epidemiology, Uppsala University, Uppsala, 75185, Sweden.; Stanford Cardiovascular Institute, Stanford University, Stanford, CA, G1120, USA.; Centro Cardiologico Monzino, IRCCS, Milan, 20138, Italy.; Heart Center Leipzig, Leipzig, 04103, Germany.; Univ. Bordeaux, Inserm, Bordeaux Population Health Research Center, UMR 1219, CHU Bordeaux, F-33000, Bordeaux, France.; Centre for Brain Research, Indian Institute of Science, Bangalore, 560012, India.; Stroke Research Group, Department of Clinical Neurosciences, University of Cambridge, Cambridge, CB2 0QQ, UK.; Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, EH8 9JZ, UK.; Department of Psychology, University of Edinburgh, Edinburgh, EH8 9JZ, UK.; Department of Cardiology, Leiden University Medical Center, Leiden, 2300, RC, The Netherlands.; Department of Internal Medicine, Radboud University Medical Center, Nijmegen, 6525, GA, The Netherlands.; Clinical Trial Service Unit and Epidemiological Studies Unit, Nuffield Department of Population Health, University of Oxford, Oxford, OX3 7LF, UK.; Department of Population and Quantitative Health Sciences, School of Medicine, Case Western Reserve University, Cleveland, OH, 44106, USA.; LIFE Research Center for Civilization Diseases, University of Leipzig, Leipzig, 04107, Germany.; Institute for Laboratory Medicine, University of Leipzig, Leipzig, 04109, Germany.; Cardiovascular Medicine Unit, Department of Medicine Solna, Karolinska Institutet, Stockholm, 17177, Sweden.; Department of Biostatistics, University of Washington, Seattle, WA, 98105, USA.; Institute for Translational Genomics and Population Sciences, Los Angeles Biomedical Research Institute at Harbor-UCLA Medical Center, Torrance, CA, 90502, USA.; Department of Internal Medicine, Rush University Medical Center, Chicago, IL, 60612, USA.; Radboud Institute for Health Sciences, Radboud University Medical Center, Nijmegen, GA, 6525, The Netherlands.; Department of Medical Sciences, Cardiovascular Epidemiology, Uppsala University, Uppsala, 751 05, Sweden.; Department of Genetics, University of North Carolina, Chapel Hill, NC, 27516, USA.; DZHK (German Center for Cardiovascular Research), partner site Greifswald, Greifswald, 17475, Germany.; Department of Internal Medicine B, University Medicine Greifswald, Greifswald, 17475, Germany.; Institute for Stroke and Dementia Research (ISD), University Hospital, Ludwig-Maximilians-University (LMU), Munich, 80539, Germany.; Munich Cluster for Systems Neurology (SyNergy), Munich, 81377, Germany.; Department of Neurology, Center for Neurology and Neurosurgery, Johann Wolfgang Goethe-University, Frankfurt am Main, 60323, Germany.; Department of Epidemiology and Public Health, University College London, London, WC1E 6BT, UK.; Institute for Social and Economic Research, Essex University, Colchester, CO4 3SQ, UK.; Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health, Bethesda, MD, 20892, USA.; Data Tecnica International, Glen Echo, MD, 20812, USA.; Research Centre of Applied and Preventive Cardiovascular Medicine, University of Turku, Turku, 20520, Finland.; Department of Clinical Physiology and Nuclear Medicine, Turku University Hospital, Turku, 20521, Finland.; Department of Epidemiology, Erasmus Medical Center, Rotterdam, 3015, The Netherlands.; Institute of Social and Preventive Medicine (ISPM), University of Bern, Bern, 3012, Switzerland.; Department of Epidemiology, Erasmus Medical Center, Rotterdam, 3015, The Netherlands.; Electrocardiography Research Group, School of Medicine, Universidad Industrial de Santander, Bucaramanga, Santander, 680003, Colombia.; Department of Genetics and Genomic Sciences, The Icahn Institute for Genomics and Multiscale Biology Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.; Department of Psychiatry and Friedman Brain Institute, Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.; Mental Illness Research Education and Clinical Center (MIRECC), James J. Peters VA Medical Center, Bronx, New York, NY, 10468, USA.; Population Health Research Institute, St George's, University of London, London, SW17 0RE, UK.; Inserm U1167, F-59000, Lille, France.; Institut Pasteur de Lille, U1167, F-59000, Lille, France.; Université de Lille, U1167 - RID-AGE & Centre Hospitalier Universitaire de Lille, U1167, F-59000, Lille, France.; Sorbonne Université, Cardiovascular Prevention Unit, Pitié Salpétrière Hospital, Paris, 75013, France.; Collaborative Health Studies Coordinating Center, Department of Biostatistics, University of Washington, Seattle, WA, 98195, USA.; Institute for Stroke and Dementia Research (ISD), University Hospital, Ludwig-Maximilians-University (LMU), Munich, 80539, Germany.; Foundation for Research in Health Exercise and Nutrition, Kuopio Research Institute of Exercise Medicine, Kuopio, 70100, Finland.; Department of Clinical Physiology and Nuclear Medicine, Kuopio University Hospital, Kuopio, 70210, Finland.; LIFE Research Center for Civilization Diseases, University of Leipzig, Leipzig, 04107, Germany.; Institute of Laboratory Medicine, University of Leipzig, Leipzig, 04109, Germany.; Institute of Clinical Chemistry and Laboratory Medicine, University Hospital Regensburg, Regensburg, 93053, Germany.; Clinical Division of Neurogeriatrics, Department of Neurology, Medical University of Graz, Graz, 8036, Austria.; Department of Clinical Epidemiology, Leiden University Medical Center, Leiden, 2333, The Netherlands.; Department of Population Health Sciences, Bristol Medical School, University of Bristol, Bristol, BS8 1QU, UK.; Cardiovascular Medicine Unit, Department of Medicine Solna, Karolinska Institutet, Stockholm, 17177, Sweden.; Mental Health and Wellbeing, Institute of Health and Wellbeing, University of Glasgow, Glasgow, G12 0XH, UK.; Department of Primary Care & Population Health, University College London, London, WC1E 6BT, UK.; Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, SE-171 77, Sweden.; Department of Internal Medicine, Section of Gerontology and Geriatrics, Leiden University Medical Center, Leiden, 2300, RC, The Netherlands.; Department of Cardiology, Leiden University Medical Center, Leiden, 2300, RC, The Netherlands.; Department of Neurology, Boston University School of Medicine, Boston, MA, 02118, USA.; Institute of Public Health and Clinical Nutrition, University of Eastern Finland, Kuopio Campus, Kuopio, FI-70210, Finland.; Cardiovascular Health Research Unit, Department of Medicine, University of Washington, Seattle, WA, 98101, USA.; Kaiser Permanente Washington Health Research Institute, Seattle, WA, 98101, USA.; Population Health Science, Bristol Medical School, University of Bristol, Bristol, BS8 1QU, UK.; MRC Integrative Epidemiology Unit at the University of Bristol, Bristol, BS8 1TH, UK.; Department of Clinical Chemistry, Fimlab Laboratories, Tampere, 33014, Finland.; Department of Clinical Chemistry, University of Tampere School of Medicine, Tampere, 33014, Finland.; Division of Cardiovascular Epidemiology, Institute of Environmental Medicine, Karolinska Institutet, Stockholm, S-171 77, Sweden.; Department of Cardiology, Karolinska University Hospital, Stockholm, S-171 77, Sweden.; Genetics Institute, University College London, London, WC1E 6BT, UK.; Departments of Medicine and Epidemiology, Johns Hopkins University, Baltimore, MD, 21205, USA.; National Heart, Lung and Blood Institute's Intramural Research Program, Framingham Heart Study, Framingham, MA, 01702-5827, USA.; Section of Biomedical Genetics, School of Medicine, Boston University, Boston, MA, 02215, USA.; Institute for Translational Genomics and Population Sciences, Los Angeles Biomedical Research Institute at Harbor-UCLA Medical Center, Torrance, CA, 90502, USA.; Department of Pediatrics, Los Angeles Biomedical Research Institute at Harbor-UCLA Medical Center, Torrance, CA, 90502, USA.; Institute of Molecular Biology and Biochemistry, Centre for Molecular Medicine, Medical University of Graz, Graz, 8010, Austria.; Department of Epidemiology, Erasmus Medical Center, Rotterdam, 3015, The Netherlands.; Department of Epidemiology & Biostatistics, Imperial College London, London, SW7 2AZ, UK.; GGZ inGeest and Amsterdam Public Health Research Institute, Department of Psychiatry, Amsterdam University Medical Center, Amsterdam, 1081 HV, The Netherlands.; Kaiser Permanente Washington Health Research Institute, Seattle, WA, 98101, USA.; Cardiovascular Health Research Unit and Departments of Medicine, Epidemiology, and Health Services, University of Washington, Seattle, WA, 98195, USA.; Department of Epidemiology, Erasmus Medical Center, Rotterdam, 3015, The Netherlands.; Clinical Trial Service Unit and Epidemiological Studies Unit, Nuffield Department of Population Health, University of Oxford, Oxford, OX3 7LF, UK.; Department of Clinical Epidemiology, Leiden University Medical Center, Leiden, 2333, The Netherlands.; Department of Public Health and Primary Care, Leiden University Medical Center, Leiden, 2333 ZA, The Netherlands.; Center for Human Genomics, Wake Forest University School of Medicine, Winston-Salem, NC, 27157, USA.; Usher Institute of Population Health Sciences and Informatics, University of Edinburgh, Edinburgh, EH8 9AG, UK.; MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, University of Edinburgh, Western General Hospital, Edinburgh, EH4 2XU, UK.; Department of Physiology and Biophysics, University of Mississippi Medical Center, Jackson, MS, 39216, USA.; Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, EH8 9JZ, UK.; Centre for Clinical Brain Sciences, and UK Dementia Research Institute at the University of Edinburgh, Edinburgh, EH16 4SB, UK.; Swansea University Medical School, Swansea, SA2 8PP, UK.; Centre for Cardiovascular Genetics, Institute Cardiovascular Science, University College London, London, WC1E 6BT, UK.; DZHK (German Center for Cardiovascular Research), partner site Greifswald, Greifswald, 17475, Germany.; Interfaculty Institute for Genetics and Functional Genomics, University Medicine Greifswald, Greifswald, 17475, Germany.; Department of Genetics and Genomic Sciences, The Icahn Institute for Genomics and Multiscale Biology Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA. [email protected].; Clinical Gene Networks AB, Stockholm, 104 62, Sweden. [email protected].; Department of Pathophysiology, Institute of Biomedicine and Translation Medicine, University of Tartu, Biomeedikum, Tartu, 51010, Estonia. [email protected].; Integrated Cardio Metabolic Centre, Department of Medicine, Karolinska Institutet, Karolinska Universitetssjukhuset, Huddinge, SE-141 57, Sweden. [email protected].; Intramural Administration Management Branch, National Heart, Lung, and Blood Institute, NIH, Bethesda, MD, 20892, USA. [email protected].; Cardiology Section, Boston Veteran's Administration Healthcare, Boston, MA, 02130, USA. [email protected].; Harvard Medical School, Boston, MA, 02115, USA. [email protected].
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