Development of a panel of genome-wide ancestry informative markers to study admixture throughout the Americas.
Abstrak
Most individuals throughout the Americas are admixed descendants of Native American, European, and African ancestors. Complex historical factors have resulted in varying proportions of ancestral contributions between individuals within and among ethnic groups. We developed a panel of 446 ancestry informative markers (AIMs) optimized to estimate ancestral proportions in individuals and populations throughout Latin America. We used genome-wide data from 953 individuals from diverse African, European, and Native American populations to select AIMs optimized for each of the three main continental populations that form the basis of modern Latin American populations. We selected markers on the basis of locus-specific branch length to be informative, well distributed throughout the genome, capable of being genotyped on widely available commercial platforms, and applicable throughout the Americas by minimizing within-continent heterogeneity. We then validated the panel in samples from four admixed populations by comparing ancestry estimates based on the AIMs panel to estimates based on genome-wide association study (GWAS) data. The panel provided balanced discriminatory power among the three ancestral populations and accurate estimates of individual ancestry proportions (R² > 0.9 for ancestral components with significant between-subject variance). Finally, we genotyped samples from 18 populations from Latin America using the AIMs panel and estimated variability in ancestry within and between these populations. This panel and its reference genotype information will be useful resources to explore population history of admixture in Latin America and to correct for the potential effects of population stratification in admixed samples in the region.
Topik & Kata Kunci
Penulis (47)
Joshua Mark Galanter
Juan Carlos Fernandez-Lopez
Christopher R Gignoux
Jill Barnholtz-Sloan
Ceres Fernandez-Rozadilla
Marc Via
Alfredo Hidalgo-Miranda
Alejandra V Contreras
Laura Uribe Figueroa
Paola Raska
Gerardo Jimenez-Sanchez
Irma Silva Zolezzi
Maria Torres
Clara Ruiz Ponte
Yarimar Ruiz
Antonio Salas
Elizabeth Nguyen
Celeste Eng
Lisbeth Borjas
William Zabala
Guillermo Barreto
Fernando Rondón González
Adriana Ibarra
Patricia Taboada
Liliana Porras
Fabián Moreno
Abigail Bigham
Gerardo Gutierrez
Tom Brutsaert
Fabiola León-Velarde
Lorna G Moore
Enrique Vargas
Miguel Cruz
Jorge Escobedo
José Rodriguez-Santana
William Rodriguez-Cintrón
Rocio Chapela
Jean G Ford
Carlos Bustamante
Daniela Seminara
Mark Shriver
Elad Ziv
Esteban Gonzalez Burchard
Robert Haile
Esteban Parra
Angel Carracedo
LACE Consortium
Format Sitasi
Akses Cepat
PDF tidak tersedia langsung
Cek di sumber asli →- Tahun Terbit
- 2012
- Sumber Database
- DOAJ
- DOI
- 10.1371/journal.pgen.1002554
- Akses
- Open Access ✓