Genome-wide association analysis identifies three psoriasis susceptibility loci

Genome-wide association analysis identifies three psoriasis susceptibility loci

Play all audios:

Loading...

ABSTRACT We carried out a meta-analysis of two recent psoriasis genome-wide association studies1,2 with a combined discovery sample of 1,831 affected individuals (cases) and 2,546 controls.


One hundred and two loci selected based on _P_ value rankings were followed up in a three-stage replication study including 4,064 cases and 4,685 controls from Michigan, Toronto,


Newfoundland and Germany. In the combined meta-analysis, we identified three new susceptibility loci, including one at _NOS2_ (rs4795067, combined _P_ = 4 × 10−11), one at _FBXL19_


(rs10782001, combined _P_ = 9 × 10−10) and one near _PSMA6_-_NFKBIA_ (rs12586317, combined _P_ = 2 × 10−8). All three loci were also associated with psoriatic arthritis (rs4795067, combined


_P_ = 1 × 10−5; rs10782001, combined _P_ = 4 × 10−8; and rs12586317, combined _P_ = 6 × 10−5) and purely cutaneous psoriasis (rs4795067, combined _P_ = 1 × 10−8; rs10782001, combined _P_ = 2


× 10−6; and rs12586317, combined _P_ = 1 × 10−6). We also replicated a recently identified3 association signal near _RNF114_ (rs495337, combined _P_ = 2 × 10−7). Access through your


institution Buy or subscribe This is a preview of subscription content, access via your institution ACCESS OPTIONS Access through your institution Subscribe to this journal Receive 12 print


issues and online access $209.00 per year only $17.42 per issue Learn more Buy this article * Purchase on SpringerLink * Instant access to full article PDF Buy now Prices may be subject to


local taxes which are calculated during checkout ADDITIONAL ACCESS OPTIONS: * Log in * Learn about institutional subscriptions * Read our FAQs * Contact customer support SIMILAR CONTENT


BEING VIEWED BY OTHERS GWAS META-ANALYSIS OF PSORIASIS IDENTIFIES NEW SUSCEPTIBILITY ALLELES IMPACTING DISEASE MECHANISMS AND THERAPEUTIC TARGETS Article Open access 28 February 2025


DISENTANGLING THE COMPLEXITY OF PSORIASIS IN THE POST-GENOME-WIDE ASSOCIATION ERA Article 16 September 2023 COPHESCAN: PHENOME-WIDE ASSOCIATION STUDIES ACCOUNTING FOR LINKAGE DISEQUILIBRIUM


Article Open access 12 July 2024 REFERENCES * Nair, R.P. et al. Genome-wide scan reveals association of psoriasis with IL-23 and NF-kappaB pathways. _Nat. Genet._ 41, 199–204 (2009). Google


Scholar  * Ellinghaus, E. et al. Genome-wide association study reveals association of psoriasis with TRAF3IP2. _Nat. Genet._ (in the press) (2010). * Capon, F. et al. Identification of


ZNF313/RNF114 as a novel psoriasis susceptibility gene. _Hum. Mol. Genet._ 17, 1938–1945 (2008). Google Scholar  * Nestle, F.O., Di Meglio, P., Qin, J.Z. & Nickoloff, B.J. Skin immune


sentinels in health and disease. _Nat. Rev. Immunol._ 9, 679–691 (2009). Google Scholar  * Gladman, D.D. Psoriatic arthritis. in _Moderate to Severe Psoriasis_ (eds. Koo, J., Lee, C.S.,


Lebwohl, M., Weinstein, G.D. & Gottlieb, A.B.) 239–258 (Informa Health Care, New York, 2009). * Gelfand, J.M. et al. Risk of myocardial infarction in patients with psoriasis. _J. Am.


Med. Assoc._ 296, 1735–1741 (2006). Google Scholar  * Makredes, M., Robinson, D. Jr., Bala, M. & Kimball, A.B. The burden of autoimmune disease: a comparison of prevalence ratios in


patients with psoriatic arthritis and psoriasis. _J. Am. Acad. Dermatol._ 61, 405–410 (2009). Google Scholar  * Russell, T.J., Schultes, L.M. & Kuban, D.J. Histocompatibility (HL-A)


antigens associated with psoriasis. _N. Engl. J. Med._ 287, 738–740 (1972). Google Scholar  * Tiilikainen, A., Lassus, A., Karvonen, J., Vartiainen, P. & Julin, M. Psoriasis and HLA-Cw6.


_Br. J. Dermatol._ 102, 179–184 (1980). Google Scholar  * Nair, R.P. et al. Sequence and haplotype analysis supports HLA-C as the psoriasis susceptibility 1 gene. _Am. J. Hum. Genet._ 78,


827–851 (2006). Google Scholar  * Hollox, E.J. et al. Psoriasis is associated with increased beta-defensin genomic copy number. _Nat. Genet._ 40, 23–25 (2008). Google Scholar  * Elder, J.T.


et al. Molecular dissection of psoriasis: integrating genetics and biology. _J. Invest. Dermatol._ 130, 1213–1236 (2009). Google Scholar  * Li, Y., Willer, C., Sanna, S. & Abecasis, G.


Genotype imputation. _Annu. Rev. Genomics Hum. Genet._ 10, 387–406 (2009). Google Scholar  * Chandran, V., Schentag, C.T. & Gladman, D.D. Sensitivity and specificity of the CASPAR


criteria for psoriatic arthritis in a family medicine clinic setting. _J. Rheumatol._ 35, 2069–2070, author reply 2070 (2008). Google Scholar  * Zaba, L.C., Krueger, J.G. & Lowes, M.A.


Resident and “inflammatory” dendritic cells in human skin. _J. Invest. Dermatol._ 129, 302–308 (2009). Google Scholar  * Melchiorri, C. et al. Enhanced and coordinated in vivo expression of


inflammatory cytokines and nitric oxide synthase by chondrocytes from patients with osteoarthritis. _Arthritis Rheum._ 41, 2165–2174 (1998). Google Scholar  * Cal, S. et al. Identification


and characterization of human polyserase-3, a novel protein with tandem serine-protease domains in the same polypeptide chain. _BMC Biochem._ 7, 9 (2006). Google Scholar  * Lu, T. et al.


Regulation of NF-kappaB by NSD1/FBXL11-dependent reversible lysine methylation of p65. _Proc. Natl. Acad. Sci. USA_ 107, 46–51 (2010). Google Scholar  * Jin, J. et al. Systematic analysis


and nomenclature of mammalian F-box proteins. _Genes Dev._ 18, 2573–2580 (2004). Google Scholar  * Chung, J.S., Bonkobara, M., Tomihari, M., Cruz, P.D. Jr. & Ariizumi, K. The


DC-HIL/syndecan-4 pathway inhibits human allogeneic T-cell responses. _Eur. J. Immunol._ 39, 965–974 (2009). Google Scholar  * Todd, J.A. et al. Robust associations of four new chromosome


regions from genome-wide analyses of type 1 diabetes. _Nat. Genet._ 39, 857–864 (2007). Google Scholar  * Schadt, E.E. et al. Mapping the genetic architecture of gene expression in human


liver. _PLoS Biol._ 6, e107 (2008). Google Scholar  * Scott, L.J. et al. A genome-wide association study of type 2 diabetes in Finns detects multiple susceptibility variants. _Science_ 316,


1341–1345 (2007). Google Scholar  * Frazer, K.A. et al. A second generation human haplotype map of over 3.1 million SNPs. _Nature_ 449, 851–861 (2007). Google Scholar  * Huang, L. et al.


Genotype-imputation accuracy across worldwide human populations. _Am. J. Hum. Genet._ 84, 235–250 (2009). Google Scholar  * de Bakker, P.I. et al. Practical aspects of imputation-driven


meta-analysis of genome-wide association studies. _Hum. Mol. Genet._ 17, R122–R128 (2008). Google Scholar  * Devlin, B., Roeder, K. & Wasserman, L. Genomic control, a new approach to


genetic-based association studies. _Theor. Popul. Biol._ 60, 155–166 (2001). Google Scholar  * Horton, R. et al. Gene map of the extended human MHC. _Nat. Rev. Genet._ 5, 889–899 (2004).


Google Scholar  * de Cid, R. et al. Deletion of the late cornified envelope LCE3B and LCE3C genes as a susceptibility factor for psoriasis. _Nat. Genet._ 41, 211–215 (2009). Google Scholar 


* Abu Bakar, S., Hollox, E.J. & Armour, J.A. Allelic recombination between distinct genomic locations generates copy number diversity in human beta-defensins. _Proc. Natl. Acad. Sci.


USA_ 106, 853–858 (2009). Google Scholar  * Gudjonsson, J.E. et al. Global gene expression analysis reveals evidence for decreased lipid biosynthesis and increased innate immunity in


uninvolved psoriatic skin. _J. Invest. Dermatol._ 129, 2795–2804 (2009). Google Scholar  Download references ACKNOWLEDGEMENTS The authors wish to thank the many psoriasis and PsA cases and


normal controls who participated in this study and to acknowledge the key contributions of K. Callis Duffin, D. Goldgar and B. Jian Feng of the University of Utah and C. Helms of Washington


University at St. Louis to the CASP study. This research was supported by grants R01AR42742, R01AR050511, R01AR054966, R01AR050266, R01HG002651 and U01HG005214 from the US National


Institutes of Health, by the Ann Arbor Veterans Affairs Hospital, by the German Ministry of Education and Research through the National Genome Research Network (BMFT 01GS 0171/ BMBF


NUW-S23T10) and by the Krembil Foundation and the Canadian Institutes of Health Research. AUTHOR INFORMATION Author notes * Philip E Stuart and Rajan P Nair: These authors contributed


equally to this work. AUTHORS AND AFFILIATIONS * Department of Dermatology, University of Michigan Medical School, Ann Arbor, Michigan, USA Philip E Stuart, Rajan P Nair, Trilokraj Tejasvi, 


Johann E Gudjonsson, John J Voorhees & James T Elder * Institute for Clinical Molecular Biology, University of Kiel, Kiel, Germany Eva Ellinghaus & Andre Franke * Department of


Biostatistics, Center for Statistical Genetics, School of Public Health, University of Michigan, Ann Arbor, Michigan, USA Jun Ding, Yun Li & Gonçalo R Abecasis * Department of


Dermatology and Allergy, Technical University Munich, Munich, Germany Stephan Weidinger & Bernadette Eberlein * Institute of Medical Informatics, Biometry and Epidemiology,


Ludwig-Maximilians-University, Munich, Germany Christian Gieger & H Erich Wichmann * Comprehensive Center for Inflammation Medicine, University of Lübeck, Lübeck, Germany Manfred Kunz *


Department of Medicine, University of Michigan Medical School, Ann Arbor, Michigan, USA Robert Ike * Department of Dermatology, University of Utah, Salt Lake City, Utah, USA Gerald G Krueger


* Division of Human Genetics, Department of Genetics, Washington University at St. Louis, St. Louis, Missouri, USA Anne M Bowcock * Department of Dermatology, University of Kiel, Kiel,


Germany Ulrich Mrowietz & Michael Weichenthal * Department of Dermatology, Henry Ford Hospital, Detroit, Michigan, USA Henry W Lim * Department of Medicine, Memorial University, St.


John's, Newfoundland, Canada Proton Rahman * Department of Rheumatology, University of Toronto, Toronto, Ontario, Canada Dafna D Gladman * Ann Arbor Veterans Affairs Medical Center, Ann


Arbor, Michigan, USA James T Elder Authors * Philip E Stuart View author publications You can also search for this author inPubMed Google Scholar * Rajan P Nair View author publications You


can also search for this author inPubMed Google Scholar * Eva Ellinghaus View author publications You can also search for this author inPubMed Google Scholar * Jun Ding View author


publications You can also search for this author inPubMed Google Scholar * Trilokraj Tejasvi View author publications You can also search for this author inPubMed Google Scholar * Johann E


Gudjonsson View author publications You can also search for this author inPubMed Google Scholar * Yun Li View author publications You can also search for this author inPubMed Google Scholar


* Stephan Weidinger View author publications You can also search for this author inPubMed Google Scholar * Bernadette Eberlein View author publications You can also search for this author


inPubMed Google Scholar * Christian Gieger View author publications You can also search for this author inPubMed Google Scholar * H Erich Wichmann View author publications You can also


search for this author inPubMed Google Scholar * Manfred Kunz View author publications You can also search for this author inPubMed Google Scholar * Robert Ike View author publications You


can also search for this author inPubMed Google Scholar * Gerald G Krueger View author publications You can also search for this author inPubMed Google Scholar * Anne M Bowcock View author


publications You can also search for this author inPubMed Google Scholar * Ulrich Mrowietz View author publications You can also search for this author inPubMed Google Scholar * Henry W Lim


View author publications You can also search for this author inPubMed Google Scholar * John J Voorhees View author publications You can also search for this author inPubMed Google Scholar *


Gonçalo R Abecasis View author publications You can also search for this author inPubMed Google Scholar * Michael Weichenthal View author publications You can also search for this author


inPubMed Google Scholar * Andre Franke View author publications You can also search for this author inPubMed Google Scholar * Proton Rahman View author publications You can also search for


this author inPubMed Google Scholar * Dafna D Gladman View author publications You can also search for this author inPubMed Google Scholar * James T Elder View author publications You can


also search for this author inPubMed Google Scholar CONTRIBUTIONS R.P.N., P.E.S. and J.T.E. performed SNP selection, data analysis and prepared the figures and tables. R.P.N., T.T., P.E.S.,


P.R. and E.E. performed genotyping. P.E.S., Y.L. and J.D. performed genotype imputation and association analyses, and P.E.S., J.E.G., and J.D. performed the expression analyses. G.R.A.


helped with statistical analyses and interpretation of results. R.P.N., T.T., J.J.V., R.I., M.W., S.W., B.E., C.G., H.E.W., H.W.L., P.R., M.K., U.M. and D.D.G. coordinated subject


recruitment and collected phenotype data. J.T.E., G.G.K. and A.M.B. contributed genotypes and phenotypes from the CASP discovery GWAS. J.T.E. and P.E.S. drafted the manuscript; R.P.N.,


G.R.A., E.E., M.W. and A.F. edited the manuscript; and J.T.E. planned and supervised the study. All authors approved the final draft. CORRESPONDING AUTHOR Correspondence to James T Elder.


ETHICS DECLARATIONS COMPETING INTERESTS The authors declare no competing financial interests. SUPPLEMENTARY INFORMATION SUPPLEMENTARY TEXT AND FIGURES Supplementary Tables 1–6 and


Supplementary Figures 1 and 2. (PDF 2747 kb) RIGHTS AND PERMISSIONS Reprints and permissions ABOUT THIS ARTICLE CITE THIS ARTICLE Stuart, P., Nair, R., Ellinghaus, E. _et al._ Genome-wide


association analysis identifies three psoriasis susceptibility loci. _Nat Genet_ 42, 1000–1004 (2010). https://doi.org/10.1038/ng.693 Download citation * Received: 09 March 2010 * Accepted:


09 July 2010 * Published: 17 October 2010 * Issue Date: November 2010 * DOI: https://doi.org/10.1038/ng.693 SHARE THIS ARTICLE Anyone you share the following link with will be able to read


this content: Get shareable link Sorry, a shareable link is not currently available for this article. Copy to clipboard Provided by the Springer Nature SharedIt content-sharing initiative