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Brazil Amazonas
Population Structure in the Amazonian Settlement of Rio Pardo
Study Area and Population
The study was carried out in the agricultural settlement of Rio Pardo, in the Presidente Figueiredo municipality, located in the Northeast of Amazonas State.
The genomic ancestry of 339 unrelated subjects was estimated by genotyping a validated set of 48 AIMs dispersed in the human genome. The allele frequencies at these loci are shown in Supplementary Table S3. One locus showed departure from Hardy–Weinberg equilibrium (HWE, P < 0.01) in the Rio Pardo population (Table S2). Population-based analyses indicated that the Rio Pardo population has strong departure of Hardy–Weinberg equilibrium (FIT = 0.04, 95% CI 0.02–0.06), which could be the result of the high level of inbreeding estimated for this population (FIS = 0.03, P = 0.015) and ancestry-based population subdivision (ρFIT-FST = 0.33, P = 0.022). The Bayesian cluster approach to inferring the genetic population structure showed that the AIMs used discriminated among European, African and Native American parental populations (Fig. 1a). The mean estimates of ancestry for the individuals from the Rio Pardo settlement pointed to a highly admixed population with significant contribution of European (44.1%, 95% CI 41.8–46.5) and Native American (37.6%, 95% CI 35.4–39.8) ancestries, but with low African ancestry (18.3%, 95% CI 16.9–19.7). Individual ancestry inference was confirmed by PCA analysis, which placed the Rio Pardo population between Europeans and Native Americans (Fig. 1b).
https://www.nature.com/articles/s41598-018-32254-z
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