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The population structure of Native Mexicans

The genetics of indigenous Mexicans exhibit substantial geographical structure, some as divergent from each other as are existing populations of Europeans and Asians. By performing genome-wide analyses on Native Mexicans from differing populations, Moreno-Estrada et al. successfully recapitulated the pre-Columbian substructure of Mexico. This ancestral structure is evident among cosmopolitan Mexicans and is correlated with subcontinental origins and medically relevant aspects of lung function. These findings exemplify the importance of understanding the genetic contributions of admixed individuals.
Science, this issue p. 1280

Abstract

Mexico harbors great cultural and ethnic diversity, yet fine-scale patterns of human genome-wide variation from this region remain largely uncharacterized. We studied genomic variation within Mexico from over 1000 individuals representing 20 indigenous and 11 mestizo populations. We found striking genetic stratification among indigenous populations within Mexico at varying degrees of geographic isolation. Some groups were as differentiated as Europeans are from East Asians. Pre-Columbian genetic substructure is recapitulated in the indigenous ancestry of admixed mestizo individuals across the country. Furthermore, two independently phenotyped cohorts of Mexicans and Mexican Americans showed a significant association between subcontinental ancestry and lung function. Thus, accounting for fine-scale ancestry patterns is critical for medical and population genetic studies within Mexico, in Mexican-descent populations, and likely in many other populations worldwide.
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Supplementary Material

Summary

Materials and Methods
Supplementary Text
Figs. S1 to S20
Tables S1 to S6
References (3364)

Resources

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References and Notes

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Science
Volume 344Issue 618913 June 2014
Pages: 1280 - 1285

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Received: 3 February 2014
Accepted: 21 May 2014

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Andrés Moreno-Estrada*, [email protected]
Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Christopher R. Gignoux
Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA, USA.
Present address: Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA. (C.R.G.)
Juan Carlos Fernández-López
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Fouad Zakharia
Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Martin Sikora
Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Alejandra V. Contreras
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Victor Acuña-Alonzo
Escuela Nacional de Antropología e Historia (ENAH), Mexico City, Mexico.
Department of Genetics, Evolution and Environment, University College London, London, UK.
Karla Sandoval
Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Celeste Eng
Department of Medicine, University of California, San Francisco, CA, USA.
Sandra Romero-Hidalgo
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Patricia Ortiz-Tello
Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Victoria Robles
Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Eimear E. Kenny
Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Present address: Center for Statistical Genetics, Mount Sinai School of Medicine, New York, USA. (E.E.K.)
Ismael Nuño-Arana
Instituto de Investigación en Genética Molecular, Universidad de Guadalajara, Ocotlán, Mexico.
Rodrigo Barquera-Lozano
Escuela Nacional de Antropología e Historia (ENAH), Mexico City, Mexico.
Gastón Macín-Pérez
Escuela Nacional de Antropología e Historia (ENAH), Mexico City, Mexico.
Julio Granados-Arriola
Instituto Nacional de Ciencias Médicas y Nutrición Salvador Zubirán, Mexico City, Mexico.
Scott Huntsman
Department of Medicine, University of California, San Francisco, CA, USA.
Joshua M. Galanter
Department of Medicine, University of California, San Francisco, CA, USA.
Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA, USA.
Marc Via
Department of Medicine, University of California, San Francisco, CA, USA.
Present address: Department of Psychiatry and Clinical Psychobiology - IR3C, Universitat de Barcelona, Spain. (M.V.).
Jean G. Ford
The Brooklyn Hospital Center, Brooklyn, NY, USA.
Rocío Chapela
Instituto Nacional de Enfermedades Respiratorias (INER), Mexico City, Mexico.
William Rodriguez-Cintron
Veterans Caribbean Health Care System, San Juan, Puerto Rico.
Jose R. Rodríguez-Santana
Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Isabelle Romieu
International Agency for Research on Cancer, Lyon, France.
Juan José Sienra-Monge
Hospital Infantil de México Federico Gomez, Mexico City, Mexico.
Blanca del Rio Navarro
Hospital Infantil de México Federico Gomez, Mexico City, Mexico.
Stephanie J. London
National Institute of Environmental Health Sciences, National Institutes of Health, Department of Health and Human Services, Research Triangle Park, NC, USA.
Andrés Ruiz-Linares
Department of Genetics, Evolution and Environment, University College London, London, UK.
Rodrigo Garcia-Herrera
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Karol Estrada
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Present address: Analytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, USA. (K.E.)
Alfredo Hidalgo-Miranda
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Gerardo Jimenez-Sanchez
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Present address: Harvard School of Public Health and Global Biotech Consulting Group. (G.J.-S.)
Alessandra Carnevale
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Xavier Soberón
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Samuel Canizales-Quinteros
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Facultad de Química, Universidad Nacional Autónoma de México, Mexico City, Mexico.
Héctor Rangel-Villalobos
Instituto de Investigación en Genética Molecular, Universidad de Guadalajara, Ocotlán, Mexico.
Irma Silva-Zolezzi
Instituto Nacional de Medicina Genómica (INMEGEN), Mexico City, Mexico.
Present address: Nutrition and Health Department Nestec Ltd, Nestle Research Center, Lausanne, Switzerland. (I.S.-Z.)
Esteban Gonzalez Burchard* [email protected]
Department of Medicine, University of California, San Francisco, CA, USA.
Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA, USA.
Carlos D. Bustamante* [email protected]
Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.

Notes

*Corresponding author. E-mail: [email protected] (C.D.B.); [email protected] (A.M.-E.); [email protected] (E.G.B.)
These authors contributed equally to this work.

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Science
Volume 344|Issue 6189
13 June 2014
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Received:3 February 2014
Accepted:21 May 2014
Published in print:13 June 2014
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