Latin American genetic studies [official archive]

[Argentano]

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

[Argentano]

New study about Costa Rica

[Vascontelo]

New study about Costa Rica

Crack! It looks similar to my collection of gedmatch samples haha. Source: https://www.ncbi.nlm.nih.gov/pubmed/29687625

[Argentano]

Crack! It looks similar to my collection of gedmatch samples haha. Source: https://www.ncbi.nlm.nih.gov/pubmed/29687625

IT seems similar to colombian studies where medellin comes up as very euro 60-70% euro but other regions are blacker (coast) or more amerindian(southeast)

[Argentano]

2018

Admixture Mapping Identifies Novel Loci for Obstructive Sleep Apnea in Hispanic/Latino Americans

https://www.ncbi.nlm.nih.gov/pubmed/30403821


11.575 Samples

2.105 Cubans 79% Euro 5.8% Amerindian 15.2% African

2.031 Puerto Ricans 64.5% European 13.7% Amerindian 21.8% AFrican

1.066 Dominicans 49.5% Euro 6.5% amerindian 44% african

829 South Americans 48.3% European 45.3% Amerindian 6.4% African

4.298 Mexicans 46.5% European 49.1% Amerindian 4.3% African

1.246 Central Americans 44% European 45.4% Amerindian 10.6% AFrican

[Token]

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).

- low African ancestry
- 18.3%

[Argentano]

[Argentano]

[Argentano]

2018 Colombia

Interaction between genetic ancestry and common breast cancer susceptibility variants in Colombian women


https://www.ncbi.nlm.nih.gov/pubmed/30485434

Methods
Study population
The study population included 1,022 BC patients unselected for family history and age at BC diagnosis and 1,023 healthy controls who participated in the Colombian Breast Cancer Case-Control (Col-BCCC) study, approved by the Institutional Review Board of the Pontificia Universidad Javeriana 37. All participants gave written informed consent prior to blood sample donation. Additional details on the study population are provided Accepted as Supplementary Material.

Average European was 55.3% ( 28.2%-80.7%)
Average Native American proportion 37.8% (11.7%-63.0%)
Average African proportions were 5.3% ( 0.0%-22.5%)

[Argentano]

https://www.ncbi.nlm.nih.gov/pubmed/30401458