Nationwide genomic biobank in Mexico unravels demographic history and complex trait architecture from 6,057 individuals: GWAS summary statistics
- Sohail, Mashaal1
- Chong, Amanda Y.2
- Quinto-Cortes, Consuelo D.3
- Palma-Martínez, María J.3
- Ragsdale, Aaron3
- Medina-Muñoz, Santiago G.3
- Barberena-Jonas, Carmina3
- Delgado-Sánche, Guadalupe4
- Cruz-Hervert, Luis Pablo5
- Ferreyra-Reyes, Leticia4
- Ferreira-Guerrero, Elizabeth4
- Mongua-Rodríguez, Norma4
- Jimenez-Kaufmann, Andrés3
- Moreno-Macías, Hortensia6
- Aguilar-Salinas, Carlos A.7
- Auckland, Kathryn2
- Cortés, Adrián8
- Acuña-Alonzo, Víctor9
- Ioannidis, Alexander G.10
- Gignoux, Christopher R.11
- Wojcik, Genevieve L.12
- Fernández-Valverde, Selene L.3
- Hill, Adrian V.S.13
- Tusié-Luna, María Teresa14
- Mentzer, Alexander J.15
- Novembre, John16
- García-García, Lourdes4
- Moreno-Estrada, Andrés3
- 1. Laboratorio Nacional de Genómica para la Biodiversidad (LANGEBIO), Unidad de Genómica Avanzada (UGA), CINVESTAV, Irapuato, Guanajuato, México; Department of Human Genetics, University of Chicago, Chicago, IL, USA; Centro de Ciencias Genómicas (CCG), Universidad Nacional Autónoma de México (UNAM), Cuernavaca, Morelos, México
- 2. The Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK
- 3. Laboratorio Nacional de Genómica para la Biodiversidad (LANGEBIO), Unidad de Genómica Avanzada (UGA), CINVESTAV, Irapuato, Guanajuato, México
- 4. Instituto Nacional de Salud Pública (INSP), Cuernavaca, Morelos, México
- 5. Instituto Nacional de Salud Pública (INSP), Cuernavaca, Morelos, México; Facultad de Odontología, Universidad Nacional Autónoma de México (UNAM), Ciudad de México, México
- 6. Unidad de Biología Molecular y Medicina Genómica, UNAM-INCMNSZ, México City, México; Universidad Autónoma Metropolitana, México City, México
- 7. Division de Nutrición, Instituto Nacional de Ciencias Médicas y Nutrición Salvador Zubirán, Mexico City, México
- 8. Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, University of Oxford, Oxford, UK
- 9. Escuela Nacional de Antropología e Historia (ENAH), Mexico City, México
- 10. Department of Biomedical Data Science, Stanford University, Stanford, CA, USA
- 11. Colorado Center for Personalized Medicine, University of Colorado Anschutz Medical Campus, Aurora, CO, USA
- 12. Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA
- 13. The Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK; The Jenner Institute, University of Oxford, Oxford, UK
- 14. Unidad de Biología Molecular y Medicina Genómica, UNAM-INCMNSZ, México City, México
- 15. The Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK; Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, University of Oxford, Oxford, UK
- 16. Department of Human Genetics, University of Chicago, Chicago, IL, USA; Department of Ecology and Evolution, University of Chicago, Chicago, IL, USA
Description
Latin America continues to be severely underrepresented in genomics research, and fine-scale genetic histories as well as complex trait architectures remain hidden due to the lack of Big Data. To fill this gap, the Mexican Biobank project genotyped 1.8 million markers in 6,057 individuals from 32 states and 898 sampling localities across Mexico with linked complex trait and disease information creating a valuable nationwide genotype-phenotype database. Through a suite of state-of-the-art methods for ancestry deconvolution and inference of identity-by-descent (IBD) segments, we inferred detailed ancestral histories for the last 200 generations in different Mesoamerican regions, unravelling native and colonial/post-colonial demographic dynamics. We observed large variations in runs of homozygosity (ROH) among genomic regions with different ancestral origins reflecting their demographic histories, which also affect the distribution of rare deleterious variants across Mexico. We analysed a range of biomedical complex traits and identified significant genetic and environmental factors explaining their variation, such as ROH found to be significant predictors for trait variation in BMI and triglycerides.
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This dataset contains GWAS summary statistics for the Mexico Biobank Project. Summary statistics for 22 binary and quantitative traits are provided from the full cohort of 5721 individuals from across Mexico, and a subset of 1061 individuals inferred to have more than 90% Native American ancestry.