Native American gene flow into Polynesia predating Easter Island settlement

Ioannidis, Alexander G.; Blanco-Portillo, Javier; Sandoval, Karla; Hagelberg, Erika; Miquel-Poblete, Juan Francisco; Moreno-Mayar, J. Víctor; Rodríguez-Rodríguez, Juan Esteban; Quinto-Cortés, Consuelo D.; Auckland, Kathryn; Parks, Tom; Robson, Kathryn; Hill, Adrian V. S.; Ávila‐Arcos, María C.; Sockell, Alexandra; Homburger, Julian R.; Wojcik, Genevieve L.; Barnes, Kathleen C.; Herrera, Luisa; Berríos, Soledad; Acuña, M; Llop, Elena; Eng, Celeste; Huntsman, Scott; Burchard, Esteban G.; Gignoux, Christopher R.; Cifuentes, L; Verdugo, Ricardo A.; Moraga, Mauricio; Mentzer, Alexander J.; Bustamante, Carlos D.; Moreno‐Estrada, Andrés

doi:10.1038/s41586-020-2487-2

Cited by 91 publications

(57 citation statements)

References 62 publications

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“…In order to analyze results, data were divided by grouping the individuals according to their community or region of origin. As described in Ioannidis et al 74 , we assessed the probability that an individual selected at random from population A shares an IBD track greater than 7 cM (in order to avoid spurious matches) with an individual selected at random from population B. Therefore, we divided the total number of individual pairs connected by more than 7 cM of IBD by the total number of possible individual pairs, for each pair of indigenous groups analyzed.…”

Section: Methodsmentioning

confidence: 99%

The genomic landscape of Mexican Indigenous populations brings insights into the peopling of the Americas

et al. 2021

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The genetic makeup of Indigenous populations inhabiting Mexico has been strongly influenced by geography and demographic history. Here, we perform a genome-wide analysis of 716 newly genotyped individuals from 60 of the 68 recognized ethnic groups in Mexico. We show that the genetic structure of these populations is strongly influenced by geography, and our demographic reconstructions suggest a decline in the population size of all tested populations in the last 15–30 generations. We find evidence that Aridoamerican and Mesoamerican populations diverged roughly 4–9.9 ka, around the time when sedentary farming started in Mesoamerica. Comparisons with ancient genomes indicate that the Upward Sun River 1 (USR1) individual is an outgroup to Mexican/South American Indigenous populations, whereas Anzick-1 was more closely related to Mesoamerican/South American populations than to those from Aridoamerica, showing an even more complex history of divergence than recognized so far.

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Section: Methodsmentioning

confidence: 99%

The genomic landscape of Mexican Indigenous populations brings insights into the peopling of the Americas

et al. 2021

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“…To control for the effect of admixture on the effective population sizes of CAHG, we then used RFMix to estimate local ancestry proportions along the genome in order to conduct ancestry-specific IBD analysis in those CAHG populations showing evidence of admixture (>10% median Bantu-associated ancestry according to the output of ADMIXTURE) (85)(Table S9). Following Perry et al (65) and Ioannidis et al (86), reference panels for each population were created selected unadmixed Bantu individuals (with >98% Bantu ancestry) according to the output from ADMIXTURE K=2. These were then paired with each CAHG population and ADMIXTURE was rerun on each pair to select appropriate reference panels for each specific case.…”

Section: Methodsmentioning

confidence: 99%

“…Inferring recent genetic connectivity between CAHG Although IBD sharing within populations provides insights into population size changes, IBD sharing between populations provides insights into recent contact or recent common ancestry. Since CAHG have a deep divergence (1), shared IBD blocks can be used to infer recent contact (37,38,86). We analyzed IBD blocks in three categories: 1-5, 5-10, and >10 cM.…”

Section: Validation Of the Model Using Archaeological Assemblagesmentioning

confidence: 99%

Population inter-connectivity over the past 120,000 years explains distribution and diversity of Central African hunter-gatherers

Padilla‐Iglesias

Atmore

Olivero³

et al. 2021

Preprint

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The evolutionary history of African hunter-gatherers holds key insights into modern human diversity. Here we combine ethnographic and genetic data on Central African hunter-gatherers (CAHG) to show that their current distribution and density is explained by ecology rather than by a displacement to marginal habitats due to recent farming expansions, as commonly assumed. We also predicted hunter-gatherer presence across Central Africa over the past 120,000 years using paleoclimatic reconstructions, which were statistically validated by dated archaeological sites. Finally, we show that genomic estimates of separation times between CAHG groups match our ecological estimates of periods favouring population splits, and that recoveries of connectivity would have facilitated subsequent gene-flow. Our results reveal that CAHG stem from a deep history of partially connected populations. This form of sociality allowed the coexistence of relatively large effective population sizes and local differentiation, with important implications for the evolution of genetic and cultural diversity in Homo sapiens.

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“…However, this study only included archaeological remains from northern North America and South America, and no Mesoamerican records were considered. Moreover, a recent study proposed a putative contact between Central Americans and Oceanian populations (~1200 CE) using modern DNA and some ancient individuals across the Americas (including the Saki Tzul individuals from the Maya Mountains) [ 90 ]. Integrating additional ancient genomes through time and space in Mesoamerica could help to clarify these hypotheses.…”

Section: Future Perspectivesmentioning

confidence: 99%

Ancient DNA Studies in Pre-Columbian Mesoamerica

Roca‐Rada

Souilmi

Teixeira

et al. 2020

Genes

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Mesoamerica is a historically and culturally defined geographic area comprising current central and south Mexico, Belize, Guatemala, El Salvador, and border regions of Honduras, western Nicaragua, and northwestern Costa Rica. The permanent settling of Mesoamerica was accompanied by the development of agriculture and pottery manufacturing (2500 BCE–150 CE), which led to the rise of several cultures connected by commerce and farming. Hence, Mesoamericans probably carried an invaluable genetic diversity partly lost during the Spanish conquest and the subsequent colonial period. Mesoamerican ancient DNA (aDNA) research has mainly focused on the study of mitochondrial DNA in the Basin of Mexico and the Yucatán Peninsula and its nearby territories, particularly during the Postclassic period (900–1519 CE). Despite limitations associated with the poor preservation of samples in tropical areas, recent methodological improvements pave the way for a deeper analysis of Mesoamerica. Here, we review how aDNA research has helped discern population dynamics patterns in the pre-Columbian Mesoamerican context, how it supports archaeological, linguistic, and anthropological conclusions, and finally, how it offers new working hypotheses.

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Native American gene flow into Polynesia predating Easter Island settlement

Cited by 91 publications

References 62 publications

The genomic landscape of Mexican Indigenous populations brings insights into the peopling of the Americas

The genomic landscape of Mexican Indigenous populations brings insights into the peopling of the Americas

Population inter-connectivity over the past 120,000 years explains distribution and diversity of Central African hunter-gatherers

Ancient DNA Studies in Pre-Columbian Mesoamerica

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