Reconstructing Native American Migrations from Whole-Genome and Whole-Exome Data

There is great scientific and popular interest in understanding the genetic history of populations in the Americas. We wish to understand when different regions of the continent were inhabited, where settlers came from, and how current inhabitants relate genetically to earlier populations. Recent st...

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Detalles Bibliográficos
Autores principales: Gravel, Simon, Zakharia, Fouad, Moreno Estrada, Andrés, Byrnes, Jake K., Muzzio, Marina, Rodriguez Flores, Juan L., Kenny, Eimear E., Gignoux, Christopher R., Maples, Brian K., Guiblet, Wilfried, Dutil, Julie, Via, Marc, Sandoval, Karla, Bedoya, Gabriel, Oleksyk, Taras K., Ruiz Linares, Andrés, Burchard, Esteban G., Martinez Cruzado, Juan Carlos, Bustamante, Carlos D., The 1000 Genomes Project
Formato: Articulo
Lenguaje:Inglés
Publicado: 2013
Materias:
Ciencias Naturales
Native American Migrations
Population genetics
Acceso en línea:http://sedici.unlp.edu.ar/handle/10915/85441
Aporte de:
SEDICI (UNLP) de Universidad Nacional de La Plata
id I19-R120-10915-85441
record_format dspace
institution Universidad Nacional de La Plata
institution_str I-19
repository_str R-120
collection SEDICI (UNLP)
language Inglés
topic Ciencias Naturales
Native American Migrations
Population genetics
spellingShingle Ciencias Naturales
Native American Migrations
Population genetics
Gravel, Simon
Zakharia, Fouad
Moreno Estrada, Andrés
Byrnes, Jake K.
Muzzio, Marina
Rodriguez Flores, Juan L.
Kenny, Eimear E.
Gignoux, Christopher R.
Maples, Brian K.
Guiblet, Wilfried
Dutil, Julie
Via, Marc
Sandoval, Karla
Bedoya, Gabriel
Oleksyk, Taras K.
Ruiz Linares, Andrés
Burchard, Esteban G.
Martinez Cruzado, Juan Carlos
Bustamante, Carlos D.
The 1000 Genomes Project
Reconstructing Native American Migrations from Whole-Genome and Whole-Exome Data
topic_facet Ciencias Naturales
Native American Migrations
Population genetics
description There is great scientific and popular interest in understanding the genetic history of populations in the Americas. We wish to understand when different regions of the continent were inhabited, where settlers came from, and how current inhabitants relate genetically to earlier populations. Recent studies unraveled parts of the genetic history of the continent using genotyping arrays and uniparental markers. The 1000 Genomes Project provides a unique opportunity for improving our understanding of population genetic history by providing over a hundred sequenced low coverage genomes and exomes from Colombian (CLM), Mexican-American (MXL), and Puerto Rican (PUR) populations. Here, we explore the genomic contributions of African, European, and especially Native American ancestry to these populations. Estimated Native American ancestry is 48% in MXL, 25% in CLM, and 13% in PUR. Native American ancestry in PUR is most closely related to populations surrounding the Orinoco River basin, confirming the Southern America ancestry of the Taíno people of the Caribbean. We present new methods to estimate the allele frequencies in the Native American fraction of the populations, and model their distribution using a demographic model for three ancestral Native American populations. These ancestral populations likely split in close succession: the most likely scenario, based on a peopling of the Americas 16 thousand years ago (kya), supports that the MXL Ancestors split 12.2kya, with a subsequent split of the ancestors to CLM and PUR 11.7kya. The model also features effective populations of 62,000 in Mexico, 8,700 in Colombia, and 1,900 in Puerto Rico. Modeling Identity-by-descent (IBD) and ancestry tract length, we show that post-contact populations also differ markedly in their effective sizes and migration patterns, with Puerto Rico showing the smallest effective size and the earlier migration from Europe. Finally, we compare IBD and ancestry assignments to find evidence for relatedness among European founders to the three populations.
format Articulo
Articulo
author Gravel, Simon
Zakharia, Fouad
Moreno Estrada, Andrés
Byrnes, Jake K.
Muzzio, Marina
Rodriguez Flores, Juan L.
Kenny, Eimear E.
Gignoux, Christopher R.
Maples, Brian K.
Guiblet, Wilfried
Dutil, Julie
Via, Marc
Sandoval, Karla
Bedoya, Gabriel
Oleksyk, Taras K.
Ruiz Linares, Andrés
Burchard, Esteban G.
Martinez Cruzado, Juan Carlos
Bustamante, Carlos D.
The 1000 Genomes Project
author_facet Gravel, Simon
Zakharia, Fouad
Moreno Estrada, Andrés
Byrnes, Jake K.
Muzzio, Marina
Rodriguez Flores, Juan L.
Kenny, Eimear E.
Gignoux, Christopher R.
Maples, Brian K.
Guiblet, Wilfried
Dutil, Julie
Via, Marc
Sandoval, Karla
Bedoya, Gabriel
Oleksyk, Taras K.
Ruiz Linares, Andrés
Burchard, Esteban G.
Martinez Cruzado, Juan Carlos
Bustamante, Carlos D.
The 1000 Genomes Project
author_sort Gravel, Simon
title Reconstructing Native American Migrations from Whole-Genome and Whole-Exome Data
title_short Reconstructing Native American Migrations from Whole-Genome and Whole-Exome Data
title_full Reconstructing Native American Migrations from Whole-Genome and Whole-Exome Data
title_fullStr Reconstructing Native American Migrations from Whole-Genome and Whole-Exome Data
title_full_unstemmed Reconstructing Native American Migrations from Whole-Genome and Whole-Exome Data
title_sort reconstructing native american migrations from whole-genome and whole-exome data
publishDate 2013
url http://sedici.unlp.edu.ar/handle/10915/85441
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