The landscape of recombination in African Americans

Anjali G Hinch; Arti Tandon; Nick Patterson; Yunli Song; Nadin Rohland; Cameron D Palmer; Gary K Chen; Kai Wang; Sarah G Buxbaum; Meggie Akylbekova; Melinda C Aldrich; Christine B Ambrosone; Christopher Amos; Elisa V Bandera; Sonja I Berndt; Leslie Bernstein; William J Blot; Cathryn H Bock; Eric Boerwinkle; Qiuyin Cai; Neil Caporaso; Graham Casey; L. Adrienne Cupples; Sandra L Deming; W. Ryan Diver; Jasmin Divers; Myriam Fornage; Elizabeth M Gillanders; Joseph Glessner; Curtis C Harris; Jennifer J Hu; Sue A Ingles; Williams Isaacs; Esther M John; W. H. Linda Kao; Brendan Keating; Rick A Kittles; Laurence N Kolonel; Emma Larkin; Loic Le Marchand; Lorna H McNeill; Robert C Millikan; Adam Murphy; Solomon Musani; Christine Neslund-Dudas; Sarah Nyante; George J Papanicolaou; Michael F Press; Bruce M Psaty; Alex P Reiner; Stephen S Rich; Jorge L Rodriguez-Gil; Jerome I Rotter; Benjamin A Rybicki; Ann G Schwartz; Lisa B Signorello; Margaret Spitz; Sara S Strom; Michael J Thun; Margaret A Tucker; Zhaoming Wang; John K Wiencke; John S Witte; Margaret Wrensch; Xifeng Wu; Yuko Yamamura; Krista A Zanetti; Wei Zheng; Regina G Ziegler; Xiaofeng Zhu; Susan Redline; Joel N Hirschhorn; Brian E Henderson; Herman A Taylor; Alkes L Price; Hakon Hakonarson; Stephen J Chanock; Christopher A Haiman; James G Wilson; David Reich; Simon R Myers

doi:10.1038/nature10336

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The landscape of recombination in African Americans

Journal article

Open access

Peer reviewed

The landscape of recombination in African Americans

Anjali G Hinch, Arti Tandon, Nick Patterson, Yunli Song, Nadin Rohland, Cameron D Palmer, Gary K Chen, Kai Wang, Sarah G Buxbaum, Meggie Akylbekova, …

Nature (London), Vol.476(7359), pp.170-175

2011-08-11

DOI: https://doi.org/10.1038/nature10336

PMCID: PMC3154982

PMID: 21775986

Abstract

Recombination, together with mutation, is the ultimate source of genetic variation in populations. We leverage the recent mixture of people of African and European ancestry in the Americas to build a genetic map measuring the probability of crossing-over at each position in the genome, based on about 2.1 million crossovers in 30,000 unrelated African Americans. At intervals of more than three megabases it is nearly identical to a map built in Europeans. At finer scales it differs significantly, and we identify about 2,500 recombination hotspots that are active in people of West African ancestry but nearly inactive in Europeans. The probability of a crossover at these hotspots is almost fully controlled by the alleles an individual carries at PRDM9 (P<10 −245 ). We identify a 17 base pair DNA sequence motif that is enriched in these hotspots, and is an excellent match to the predicted binding target of African-enriched alleles of PRDM9 .

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Collaboration types: Industry collaboration; Domestic collaboration; International collaboration
Citation topics: 1 Clinical & Life Sciences; 1.189 Genome Studies; 1.189.310 Population Genetics
Web Of Science research areas: Genetics & Heredity
ESI research areas: Molecular Biology & Genetics

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Title: The landscape of recombination in African Americans
Creators: Anjali G Hinch - Wellcome Trust Centre for Human Genetics, Oxford University, Roosevelt Drive, Oxford OX3 7BN, UK
Arti Tandon - Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA 02142, USA
Nick Patterson - Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA 02142, USA
Yunli Song - Department of Statistics, Oxford University, 1 South Parks Road, Oxford OX1 3TG, UK
Nadin Rohland - Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA 02142, USA
Cameron D Palmer - Program in Medical and Population Genetics, Broad Institute, 7 Cambridge Center, Cambridge, MA 02142, USA
Gary K Chen - Department of Preventive Medicine and Department of Pathology, Keck School of Medicine, University of Southern California/ Norris Comprehensive Cancer Center, Los Angeles, CA 90033, USA
Kai Wang - Zilkha Neurogenetic Institute, University of Southern California, Los Angeles, CA 90089
Sarah G Buxbaum - Jackson Heart Study Coordinating Center, Jackson State University, 350 W. Woodrow Wilson Ave., Suite 701, Jackson, MS 39213, USA
Meggie Akylbekova - Jackson Heart Study Coordinating Center, Jackson State University, 350 W. Woodrow Wilson Ave., Suite 701, Jackson, MS 39213, USA
Melinda C Aldrich - Department of Thoracic Surgery, Vanderbilt University School of Medicine, Nashville, TN 37203, USA
Christine B Ambrosone - Department of Cancer Prevention and Control, Roswell Park Cancer Institute, Buffalo, NY 14263, USA
Christopher Amos - Department of Epidemiology, Division of Cancer Prevention and Population Sciences, The University of Texas MD Anderson Cancer Center, Houston, TX 7703
Elisa V Bandera - The Cancer Institute of New Jersey, New Brunswick, NJ 08903, USA
Sonja I Berndt - Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD 20892, USA
Leslie Bernstein - Division of Cancer Etiology, Dept. of Population Science, Beckman Research Inst., City of Hope, CA 91010, USA
William J Blot - Division of Epidemiology in the Department of Medicine, Vanderbilt Epidemiology Center; and the Vanderbilt-Ingram Cancer Center, Vanderbilt University School of Medicine, Nashville, TN 37203, USA
Cathryn H Bock - Karmanos Cancer Institute and Dept. of Oncology, Wayne State University of Medicine, Detroit, MI USA 48201
Eric Boerwinkle - Human Genetics Center and Division of Epidemiology, University of Texas at Houston, 1200 Herman Pressler St., Houston, Texas 77030, USA
Qiuyin Cai - Division of Epidemiology in the Department of Medicine, Vanderbilt Epidemiology Center; and the Vanderbilt-Ingram Cancer Center, Vanderbilt University School of Medicine, Nashville, TN 37203, USA
Neil Caporaso - Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD 20892, USA
Graham Casey - Department of Preventive Medicine and Department of Pathology, Keck School of Medicine, University of Southern California/ Norris Comprehensive Cancer Center, Los Angeles, CA 90033, USA
L. Adrienne Cupples - Department of Biostatistics, Boston University School of Public Health, 801 Massachusetts Avenue, Boston, MA 02118 and Framingham Heart Study, Framingham, MA 01702, USA
Sandra L Deming - Division of Epidemiology in the Department of Medicine, Vanderbilt Epidemiology Center; and the Vanderbilt-Ingram Cancer Center, Vanderbilt University School of Medicine, Nashville, TN 37203, USA
W. Ryan Diver - Epidemiology Research Program, American Cancer Society, Atlanta, GA 30303, USA
Jasmin Divers - Department of Biostatistical Sciences, Wake Forest University School of Medicine WC-2326, Medical Center Blvd., Winston Salem, NC 27157, USA
Myriam Fornage - Institute of Molecular Medicine and Division of Epidemiology, School of Public Health, University of Texas Health Sciences Center at Houston, 1825 Pressler Street, Houston, TX 77030, USA
Elizabeth M Gillanders - Division of Cancer Control and Population Sciences, National Cancer Institute, Bethesda, MD 20892, USA
Joseph Glessner - Center for Applied Genomics, The Childrens Hospital of Philadelphia, Philadelphia, Pennsylvania 19104, USA
Curtis C Harris - Laboratory of Human Carcinogenesis, Center for Cancer Research, National Cancer Institute, Bethesda, MD 20892, USA
Jennifer J Hu - Sylvester Comprehensive Cancer Center and Department of Epidemiology and Public Health, University of Miami Miller School of Medicine, Miami, FL 33136, USA
Sue A Ingles - Department of Preventive Medicine and Department of Pathology, Keck School of Medicine, University of Southern California/ Norris Comprehensive Cancer Center, Los Angeles, CA 90033, USA
Williams Isaacs - James Buchanan Brady Urological Institute, Johns Hopkins Hospital and Medical Institutions, Baltimore, MD 21287, USA
Esther M John - Cancer Prevention Institute of California, Fremont, CA 94538; and Stanford University School of Medicine and Stanford Cancer Center, Stanford, CA 94305, USA
W. H. Linda Kao - Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, 615 N. Wolfe St., Baltimore, MD 21205, USA
Brendan Keating - Center for Applied Genomics, The Childrens Hospital of Philadelphia, Philadelphia, Pennsylvania 19104, USA
Rick A Kittles - Department of Medicine, University of Illinois at Chicago, Chicago, IL 60607, USA
Laurence N Kolonel - Epidemiology Program, University of Hawaii Cancer Center, Honolulu, HI 96813, USA
Emma Larkin - Department of Medicine, Division of Allergy, Pulmonary and Critical Care, 6100 Medical Center East, Vanderbilt University Medical Center, Nashville, TN 37232-8300, USA
Loic Le Marchand - Epidemiology Program, University of Hawaii Cancer Center, Honolulu, HI 96813, USA
Lorna H McNeill - Department of Health Disparities Research, Division of OVP, Cancer Prevention and Population Sciences, and Center for Community Implementation and Dissemination Research, Duncan Family Institute, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA
Robert C Millikan - Department of Epidemiology, Gillings School of Global Public Health, and Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA
Adam Murphy - Department of Urology, Northwestern University, Chicago, IL 60611, USA
Solomon Musani - Department of Medicine, University of Mississippi Medical Center, 2500 N. State St., Jackson, MS 39216, USA
Christine Neslund-Dudas - Department of Public Health Sciences, Henry Ford Hospital, Detroit, MI USA
Sarah Nyante - Department of Epidemiology, Gillings School of Global Public Health, and Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA
George J Papanicolaou - Division of Cardiovascular Sciences, National Heart, Lung and Blood Institute, 6701 Rockledge Drive, Bethesda, MD 20892, USA
Michael F Press - Department of Preventive Medicine and Department of Pathology, Keck School of Medicine, University of Southern California/ Norris Comprehensive Cancer Center, Los Angeles, CA 90033, USA
Bruce M Psaty - Cardiovascular Health Research Unit, Depts. of Medicine, Epidemiology & Health Services, Univ. of Washington; Group Health Research Institute; Group Health Cooperative; 1730 Minor Ave., Seattle, WA 98101, USA
Alex P Reiner - Department of Epidemiology, University of Washington, Box 357236 Seattle, WA 98195, USA
Stephen S Rich - Center for Public Health Genomics, University of Virginia, West Complex Room 6111, Charlottesville, VA 22908, USA
Jorge L Rodriguez-Gil - Sylvester Comprehensive Cancer Center and Department of Epidemiology and Public Health, University of Miami Miller School of Medicine, Miami, FL 33136, USA
Jerome I Rotter - Medical Genetics Institute, Cedars-Sinai Medical Center, 8700 Beverly Blvd, Los Angeles, CA 90048, USA
Benjamin A Rybicki - Department of Public Health Sciences, Henry Ford Hospital, Detroit, MI USA
Ann G Schwartz - Karmanos Cancer Institute and Dept. of Oncology, Wayne State University of Medicine, Detroit, MI USA 48201
Lisa B Signorello - Division of Epidemiology in the Department of Medicine, Vanderbilt Epidemiology Center; and the Vanderbilt-Ingram Cancer Center, Vanderbilt University School of Medicine, Nashville, TN 37203, USA
Margaret Spitz - Department of Epidemiology, Division of Cancer Prevention and Population Sciences, The University of Texas MD Anderson Cancer Center, Houston, TX 7703
Sara S Strom - Department of Epidemiology, The University of Texas M. D. Anderson Cancer Center, Houston, TX 77030, USA
Michael J Thun - Epidemiology Research Program, American Cancer Society, Atlanta, GA 30303, USA
Margaret A Tucker - Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD 20892, USA
Zhaoming Wang - Core Genotype Facility, SAIC-Frederick, Inc., National Cancer Institute-Frederick, Frederick, Maryland, USA 20877, USA
John K Wiencke - University of California San Francisco, San Francisco CA 94158, USA
John S Witte - Institute for Human Genetics, Departments of Epidemiology and Biostatistics and Urology, University of California, San Francisco, San Francisco, CA 94158, USA
Margaret Wrensch - University of California San Francisco, San Francisco CA 94158, USA
Xifeng Wu - Department of Epidemiology, Division of Cancer Prevention and Population Sciences, The University of Texas MD Anderson Cancer Center, Houston, TX 7703
Yuko Yamamura - Department of Epidemiology, The University of Texas M. D. Anderson Cancer Center, Houston, TX 77030, USA
Krista A Zanetti - Division of Cancer Control and Population Sciences, National Cancer Institute, Bethesda, MD 20892, USA
Wei Zheng - Division of Epidemiology in the Department of Medicine, Vanderbilt Epidemiology Center; and the Vanderbilt-Ingram Cancer Center, Vanderbilt University School of Medicine, Nashville, TN 37203, USA
Regina G Ziegler - Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD 20892, USA
Xiaofeng Zhu - Department of Epidemiology and Biostatistics, School of Medicine, Case Western Reserve University, Wolstein Research Building, Cleveland, Ohio 44106, USA
Susan Redline - Brigham and Women’s Hospital, Dept. of Medicine, Sleep Medicine, 75 Francis Street, Boston, MA 02115, USA
Joel N Hirschhorn - Program in Medical and Population Genetics, Broad Institute, 7 Cambridge Center, Cambridge, MA 02142, USA
Brian E Henderson - Department of Preventive Medicine and Department of Pathology, Keck School of Medicine, University of Southern California/ Norris Comprehensive Cancer Center, Los Angeles, CA 90033, USA
Herman A Taylor - Department of Medicine, University of Mississippi Medical Center, 2500 N. State St., Jackson, MS 39216, USA
Alkes L Price - Departments of Epidemiology and Biostatistics, Harvard School of Public Health, Boston, MA 02115, USA
Hakon Hakonarson - Center for Applied Genomics, The Childrens Hospital of Philadelphia, Philadelphia, Pennsylvania 19104, USA
Stephen J Chanock - Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD 20892, USA
Christopher A Haiman - Department of Preventive Medicine and Department of Pathology, Keck School of Medicine, University of Southern California/ Norris Comprehensive Cancer Center, Los Angeles, CA 90033, USA
James G Wilson - Department of Physiology and Biophysics, University of Mississippi Medical Center, 2500 N. State St., Jackson, MS 39216, USA
David Reich - Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA 02142, USA
Simon R Myers - Wellcome Trust Centre for Human Genetics, Oxford University, Roosevelt Drive, Oxford OX3 7BN, UK
Publication Details: Nature (London), Vol.476(7359), pp.170-175
Academic Unit: Miller School of Medicine; UMMG Department of Public Health Sciences Research
Language: English
Resource Type: Journal article
PMID: 21775986
PMCID: PMC3154982
Record Identifier: 991031560569002976