Meta-analysis of Parkinson disease: Identification of a novel locus, RIT2

• Authors: Nathan Pankratz, Indiana University; Gary W. Beecham, University of Miami; Anita L. DeStefano, Boston University; Ted M. Dawson, Johns Hopkins University; Kimberly F. Doheny, Johns Hopkins University; Stewart Factor, Emory University; Taye H. Hamza, New York State Department of Health; Albert Y. Hung, Massachusetts General Hospital; Bradley T. Hyman, Massachusetts General Hospital; Adrian J. Ivinson, Harvard University; Dmitri Krainc, Massachusetts General Hospital; Jeanne C. Latourelle, Boston University; Lorraine N. Clark, Columbia University; Karen Marder, Columbia University; Eden R. Martin, University of Miami; Richard Mayeux, Columbia University; Owen A. Ross, Mayo Clinic; Clemens R. Scherzer, Harvard University; David K. Simon, Beth Israel Deaconess Medical Center; Caroline Tanner, Parkinsons Institute; Jeffery M. Vance, University of Miami; Zbigniew K. Wszolek, Mayo Clinic; Cyrus P. Zabetian, VA Puget Sound Health Care System; Richard H. Myers, Boston University; Haydeh Payami, New York State Department of Health; William K. Scott, University of Miami; Tatiana Foroud, Indiana University; Boadie W Dunlop, Emory University
• Journal Title: Annals of Neurology
• Volume: Volume 71, Number 3
• Publisher: Wiley: 12 months | 2012-03-01, Pages 370-384
• Type of Work: Article | Post-print: After Peer Review
• Publisher DOI: http://doi.org/10.1002/ana.22687
• Subjects: Biology, Neuroscience; Biology, Genetics
• Keywords: Science & Technology; Life Sciences & Biomedicine; Clinical Neurology; Neurosciences; Neurosciences & Neurology; GENOME-WIDE ASSOCIATION; ALPHA-SYNUCLEIN; RISK-FACTORS; CALMODULIN; SNCA; SUSCEPTIBILITY; HAPLOTYPES; VARIANTS; SEQUENCE; GENETICS

Abstract

Objective: Genome-wide association (GWAS) methods have identified genes contributing to Parkinson's disease (PD); we sought to identify additional genes associated with PD susceptibility. Methods: A 2-stage design was used. First, individual level genotypic data from 5 recent PD GWAS (Discovery Sample: 4,238 PD cases and 4,239 controls) were combined. Following imputation, a logistic regression model was employed in each dataset to test for association with PD susceptibility and results from each dataset were meta-analyzed. Second, 768 single-nucleotide polymorphisms (SNPs) were genotyped in an independent Replication Sample (3,738 cases and 2,111 controls). Results: Genome-wide significance was reached for SNPs in SNCA (rs356165; G: odds ratio [OR] = 1.37; p = 9.3 × 10-21), MAPT (rs242559; C: OR = 0.78; p = 1.5 × 10-10), GAK/DGKQ (rs11248051; T: OR = 1.35; p = 8.2 × 10-9/rs11248060; T: OR = 1.35; p = 2.0 × 10-9), and the human leukocyte antigen (HLA) region (rs3129882; A: OR = 0.83; p = 1.2 × 10-8), which were previously reported. The Replication Sample confirmed the associations with SNCA, MAPT, and the HLA region and also with GBA (E326K; OR = 1.71; p = 5 × 10-8Combined Sample) (N370; OR = 3.08; p = 7 × 10-5Replication sample). A novel PD susceptibility locus, RIT2, on chromosome 18 (rs12456492; p = 5 × 10-5Discovery Sample; p = 1.52 × 10-7Replication sample; p = 2 × 10-10Combined Sample) was replicated. Conditional analyses within each of the replicated regions identified distinct SNP associations within GBA and SNCA, suggesting that there may be multiple risk alleles within these genes. Interpretation: We identified a novel PD susceptibility locus, RIT2, replicated several previously identified loci, and identified more than 1 risk allele within SNCA and GBA. Copyright