PLoS ONE (Jan 2012)

A genome-wide association search for type 2 diabetes genes in African Americans.

  • Nicholette D Palmer,
  • Caitrin W McDonough,
  • Pamela J Hicks,
  • Bong H Roh,
  • Maria R Wing,
  • S Sandy An,
  • Jessica M Hester,
  • Jessica N Cooke,
  • Meredith A Bostrom,
  • Megan E Rudock,
  • Matthew E Talbert,
  • Joshua P Lewis,
  • DIAGRAM Consortium,
  • MAGIC Investigators,
  • Assiamira Ferrara,
  • Lingyi Lu,
  • Julie T Ziegler,
  • Michele M Sale,
  • Jasmin Divers,
  • Daniel Shriner,
  • Adebowale Adeyemo,
  • Charles N Rotimi,
  • Maggie C Y Ng,
  • Carl D Langefeld,
  • Barry I Freedman,
  • Donald W Bowden,
  • Benjamin F Voight,
  • Laura J Scott,
  • Valgerdur Steinthorsdottir,
  • Andrew P Morris,
  • Christian Dina,
  • Ryan P Welch,
  • Eleftheria Zeggini,
  • Cornelia Huth,
  • Yurii S Aulchenko,
  • Gudmar Thorleifsson,
  • Laura J McCulloch,
  • Teresa Ferreira,
  • Harald Grallert,
  • Najaf Amin,
  • Guanming Wu,
  • Cristen J Willer,
  • Soumya Raychaudhuri,
  • Steve A McCarroll,
  • Claudia Langenberg,
  • Oliver M Hofmann,
  • Josée Dupuis,
  • Lu Qi,
  • Ayellet V Segrè,
  • Mandy van Hoek,
  • Pau Navarro,
  • Kristin Ardlie,
  • Beverley Balkau,
  • Rafn Benediktsson,
  • Amanda J Bennett,
  • Roza Blagieva,
  • Eric Boerwinkle,
  • Lori L Bonnycastle,
  • Kristina Bengtsson Boström,
  • Bert Bravenboer,
  • Suzannah Bumpstead,
  • Noël P Burtt,
  • Guillaume Charpentier,
  • Peter S Chines,
  • Marilyn Cornelis,
  • David J Couper,
  • Gabe Crawford,
  • Alex S F Doney,
  • Katherine S Elliott,
  • Amanda L Elliott,
  • Michael R Erdos,
  • Caroline S Fox,
  • Christopher S Franklin,
  • Martha Ganser,
  • Christian Gieger,
  • Niels Grarup,
  • Todd Green,
  • Simon Griffin,
  • Christopher J Groves,
  • Candace Guiducci,
  • Samy Hadjadj,
  • Neelam Hassanali,
  • Christian Herder,
  • Bo Isomaa,
  • Anne U Jackson,
  • Paul R V Johnson,
  • Torben Jørgensen,
  • Wen H L Kao,
  • Norman Klopp,
  • Augustine Kong,
  • Peter Kraft,
  • Johanna Kuusisto,
  • Torsten Lauritzen,
  • Man Li,
  • Aloysius Lieverse,
  • Cecilia M Lindgren,
  • Valeriya Lyssenko,
  • Michel Marre,
  • Thomas Meitinger,
  • Kristian Midthjell,
  • Mario A Morken,
  • Narisu Narisu,
  • Peter Nilsson,
  • Katharine R Owen,
  • Felicity Payne,
  • John R B Perry,
  • Ann-Kristin Petersen,
  • Carl Platou,
  • Christine Proença,
  • Inga Prokopenko,
  • Wolfgang Rathmann,
  • N William Rayner,
  • Neil R Robertson,
  • Ghislain Rocheleau,
  • Michael Roden,
  • Michael J Sampson,
  • Richa Saxena,
  • Beverley M Shields,
  • Peter Shrader,
  • Gunnar Sigurdsson,
  • Thomas Sparsø,
  • Klaus Strassburger,
  • Heather M Stringham,
  • Qi Sun,
  • Amy J Swift,
  • Barbara Thorand,
  • Jean Tichet,
  • Tiinamaija Tuomi,
  • Rob M van Dam,
  • Timon W van Haeften,
  • Thijs van Herpt,
  • Jana V van Vliet-Ostaptchouk,
  • G Bragi Walters,
  • Michael N Weedon,
  • Cisca Wijmenga,
  • Jacqueline Witteman,
  • Richard N Bergman,
  • Stephane Cauchi,
  • Francis S Collins,
  • Anna L Gloyn,
  • Ulf Gyllensten,
  • Torben Hansen,
  • Winston A Hide,
  • Graham A Hitman,
  • Albert Hofman,
  • David J Hunter,
  • Kristian Hveem,
  • Markku Laakso,
  • Karen L Mohlke,
  • Andrew D Morris,
  • Colin N A Palmer,
  • Peter P Pramstaller,
  • Igor Rudan,
  • Eric Sijbrands,
  • Lincoln D Stein,
  • Jaakko Tuomilehto,
  • Andre Uitterlinden,
  • Mark Walker,
  • Nicholas J Wareham,
  • Richard M Watanabe,
  • Goncalo R Abecasis,
  • Bernhard O Boehm,
  • Harry Campbell,
  • Mark J Daly,
  • Andrew T Hattersley,
  • Frank B Hu,
  • James B Meigs,
  • James S Pankow,
  • Oluf Pedersen,
  • H-Erich Wichmann,
  • Inês Barroso,
  • Jose C Florez,
  • Timothy M Frayling,
  • Leif Groop,
  • Rob Sladek,
  • Unnur Thorsteinsdottir,
  • James F Wilson,
  • Thomas Illig,
  • Philippe Froguel,
  • Cornelia M van Duijn,
  • Kari Stefansson,
  • David Altshuler,
  • Michael Boehnke,
  • Mark I McCarthy,
  • Nicole Soranzo,
  • Eleanor Wheeler,
  • Nicole L Glazer,
  • Nabila Bouatia-Naji,
  • Reedik Mägi,
  • Joshua Randall,
  • Toby Johnson,
  • Paul Elliott,
  • Denis Rybin,
  • Peter Henneman,
  • Abbas Dehghan,
  • Jouke Jan Hottenga,
  • Kijoung Song,
  • Anuj Goel,
  • Josephine M Egan,
  • Taina Lajunen,
  • Alex Doney,
  • Stavroula Kanoni,
  • Christine Cavalcanti-Proença,
  • Meena Kumari,
  • Nicholas J Timpson,
  • Carina Zabena,
  • Erik Ingelsson,
  • Ping An,
  • Jeffrey O'Connell,
  • Jian'an Luan,
  • Amanda Elliott,
  • Steven A McCarroll,
  • Rosa Maria Roccasecca,
  • François Pattou,
  • Praveen Sethupathy,
  • Yavuz Ariyurek,
  • Philip Barter,
  • John P Beilby,
  • Yoav Ben-Shlomo,
  • Sven Bergmann,
  • Murielle Bochud,
  • Amélie Bonnefond,
  • Knut Borch-Johnsen,
  • Yvonne Böttcher,
  • Eric Brunner,
  • Suzannah J Bumpstead,
  • Yii-Der Ida Chen,
  • Peter Chines,
  • Robert Clarke,
  • Lachlan J M Coin,
  • Matthew N Cooper,
  • Laura Crisponi,
  • Ian N M Day,
  • Eco J C de Geus,
  • Jerome Delplanque,
  • Annette C Fedson,
  • Antje Fischer-Rosinsky,
  • Nita G Forouhi,
  • Rune Frants,
  • Maria Grazia Franzosi,
  • Pilar Galan,
  • Mark O Goodarzi,
  • Jürgen Graessler,
  • Scott Grundy,
  • Rhian Gwilliam,
  • Göran Hallmans,
  • Naomi Hammond,
  • Xijing Han,
  • Anna-Liisa Hartikainen,
  • Caroline Hayward,
  • Simon C Heath,
  • Serge Hercberg,
  • Andrew A Hicks,
  • David R Hillman,
  • Aroon D Hingorani,
  • Jennie Hui,
  • Joe Hung,
  • Antti Jula,
  • Marika Kaakinen,
  • Jaakko Kaprio,
  • Y Antero Kesaniemi,
  • Mika Kivimaki,
  • Beatrice Knight,
  • Seppo Koskinen,
  • Peter Kovacs,
  • Kirsten Ohm Kyvik,
  • G Mark Lathrop,
  • Debbie A Lawlor,
  • Olivier Le Bacquer,
  • Cécile Lecoeur,
  • Yun Li,
  • Robert Mahley,
  • Massimo Mangino,
  • Alisa K Manning,
  • María Teresa Martínez-Larrad,
  • Jarred B McAteer,
  • Ruth McPherson,
  • Christa Meisinger,
  • David Melzer,
  • David Meyre,
  • Braxton D Mitchell,
  • Sutapa Mukherjee,
  • Silvia Naitza,
  • Matthew J Neville,
  • Ben A Oostra,
  • Marco Orrù,
  • Ruth Pakyz,
  • Giuseppe Paolisso,
  • Cristian Pattaro,
  • Daniel Pearson,
  • John F Peden,
  • Nancy L Pedersen,
  • Markus Perola,
  • Andreas F H Pfeiffer,
  • Irene Pichler,
  • Ozren Polasek,
  • Danielle Posthuma,
  • Simon C Potter,
  • Anneli Pouta,
  • Michael A Province,
  • Bruce M Psaty,
  • Nigel W Rayner,
  • Kenneth Rice,
  • Samuli Ripatti,
  • Fernando Rivadeneira,
  • Olov Rolandsson,
  • Annelli Sandbaek,
  • Manjinder Sandhu,
  • Serena Sanna,
  • Avan Aihie Sayer,
  • Paul Scheet,
  • Udo Seedorf,
  • Stephen J Sharp,
  • Beverley Shields,
  • Eric J G Sijbrands,
  • Angela Silveira,
  • Laila Simpson,
  • Andrew Singleton,
  • Nicholas L Smith,
  • Ulla Sovio,
  • Amy Swift,
  • Holly Syddall,
  • Ann-Christine Syvänen,
  • Toshiko Tanaka,
  • Anke Tönjes,
  • André G Uitterlinden,
  • Ko Willems van Dijk,
  • Dhiraj Varma,
  • Sophie Visvikis-Siest,
  • Veronique Vitart,
  • Nicole Vogelzangs,
  • Gérard Waeber,
  • Peter J Wagner,
  • Andrew Walley,
  • Kim L Ward,
  • Hugh Watkins,
  • Sarah H Wild,
  • Gonneke Willemsen,
  • Jaqueline C M Witteman,
  • John W G Yarnell,
  • Diana Zelenika,
  • Björn Zethelius,
  • Guangju Zhai,
  • Jing Hua Zhao,
  • M Carola Zillikens,
  • Ingrid B Borecki,
  • Ruth J F Loos,
  • Pierre Meneton,
  • Patrik K E Magnusson,
  • David M Nathan,
  • Gordon H Williams,
  • Kaisa Silander,
  • Veikko Salomaa,
  • George Davey Smith,
  • Stefan R Bornstein,
  • Peter Schwarz,
  • Joachim Spranger,
  • Fredrik Karpe,
  • Alan R Shuldiner,
  • Cyrus Cooper,
  • George V Dedoussis,
  • Manuel Serrano-Ríos,
  • Lars Lind,
  • Lyle J Palmer,
  • Paul W Franks,
  • Shah Ebrahim,
  • Michael Marmot,
  • W H Linda Kao,
  • Peter Paul Pramstaller,
  • Alan F Wright,
  • Michael Stumvoll,
  • Anders Hamsten,
  • Thomas A Buchanan,
  • Timo T Valle,
  • Jerome I Rotter,
  • David S Siscovick,
  • Brenda W J H Penninx,
  • Dorret I Boomsma,
  • Panos Deloukas,
  • Timothy D Spector,
  • Luigi Ferrucci,
  • Antonio Cao,
  • Angelo Scuteri,
  • David Schlessinger,
  • Manuela Uda,
  • Aimo Ruokonen,
  • Marjo-Riitta Jarvelin,
  • Dawn M Waterworth,
  • Peter Vollenweider,
  • Leena Peltonen,
  • Vincent Mooser,
  • Robert Sladek

DOI
https://doi.org/10.1371/journal.pone.0029202
Journal volume & issue
Vol. 7, no. 1
p. e29202

Abstract

Read online

African Americans are disproportionately affected by type 2 diabetes (T2DM) yet few studies have examined T2DM using genome-wide association approaches in this ethnicity. The aim of this study was to identify genes associated with T2DM in the African American population. We performed a Genome Wide Association Study (GWAS) using the Affymetrix 6.0 array in 965 African-American cases with T2DM and end-stage renal disease (T2DM-ESRD) and 1029 population-based controls. The most significant SNPs (n = 550 independent loci) were genotyped in a replication cohort and 122 SNPs (n = 98 independent loci) were further tested through genotyping three additional validation cohorts followed by meta-analysis in all five cohorts totaling 3,132 cases and 3,317 controls. Twelve SNPs had evidence of association in the GWAS (P<0.0071), were directionally consistent in the Replication cohort and were associated with T2DM in subjects without nephropathy (P<0.05). Meta-analysis in all cases and controls revealed a single SNP reaching genome-wide significance (P<2.5×10(-8)). SNP rs7560163 (P = 7.0×10(-9), OR (95% CI) = 0.75 (0.67-0.84)) is located intergenically between RND3 and RBM43. Four additional loci (rs7542900, rs4659485, rs2722769 and rs7107217) were associated with T2DM (P<0.05) and reached more nominal levels of significance (P<2.5×10(-5)) in the overall analysis and may represent novel loci that contribute to T2DM. We have identified novel T2DM-susceptibility variants in the African-American population. Notably, T2DM risk was associated with the major allele and implies an interesting genetic architecture in this population. These results suggest that multiple loci underlie T2DM susceptibility in the African-American population and that these loci are distinct from those identified in other ethnic populations.