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dc.contributor.author
Gravel, Simon
dc.contributor.author
Zakharia, Fouad
dc.contributor.author
Moreno Estrada, Andrés
dc.contributor.author
Byrnes, Jake B.
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Muzzio, Marina
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Rodriguez Flores, Juan L.
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Kenny, Eimear E.
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Gignoux, Christopher R.
dc.contributor.author
Maples, Brian K.
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Guiblet, Wilfried
dc.contributor.author
Dutil, Julie
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Via, Marc
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Sandoval, Karla
dc.contributor.author
Bedoya, Gabriel
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Oleksyk, Taras K.
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Ruiz Linares, Andres
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Burchard, Esteban G.
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Martinez Cruzado, Juan Carlos
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Bustamante, Carlos
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The 1000 Genomes Project
dc.date.available
2017-08-29T13:00:30Z
dc.date.issued
2013-10
dc.identifier.citation
Gravel, Simon; Zakharia, Fouad; Moreno Estrada, Andrés; Byrnes, Jake B.; Muzzio, Marina; et al.; Reconstructing native american migrations from whole-genome and whole-exome data; Public Library Science; Plos Genetics; 9; 12; 10-2013; 1-14; e1004023
dc.identifier.issn
1553-7390
dc.identifier.uri
http://hdl.handle.net/11336/23209
dc.description.abstract
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 in MXL, in CLM, and 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 thousand years ago (kya), supports that the MXL Ancestors split kya, with a subsequent split of the ancestors to CLM and PUR kya. The model also features effective populations of in Mexico, in Colombia, and 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.
dc.format
application/pdf
dc.language.iso
eng
dc.publisher
Public Library Science
dc.rights
info:eu-repo/semantics/openAccess
dc.rights.uri
https://creativecommons.org/licenses/by/2.5/ar/
dc.subject
Full Genomes
dc.subject
Native American
dc.subject
Sequencing
dc.subject
Models
dc.subject.classification
Bioquímica y Biología Molecular
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Ciencias Biológicas
dc.subject.classification
CIENCIAS NATURALES Y EXACTAS
dc.title
Reconstructing native american migrations from whole-genome and whole-exome data
dc.type
info:eu-repo/semantics/article
dc.type
info:ar-repo/semantics/artículo
dc.type
info:eu-repo/semantics/publishedVersion
dc.date.updated
2015-05-27T18:05:09Z
dc.journal.volume
9
dc.journal.number
12
dc.journal.pagination
1-14; e1004023
dc.journal.pais
Estados Unidos
dc.journal.ciudad
San Francisco
dc.description.fil
Fil: Gravel, Simon. Université du Québec a Montreal; Canadá. McGill University; Canadá
dc.description.fil
Fil: Zakharia, Fouad. University of Stanford; Estados Unidos
dc.description.fil
Fil: Moreno Estrada, Andrés. University of Stanford; Estados Unidos
dc.description.fil
Fil: Byrnes, Jake B.. University of Stanford; Estados Unidos
dc.description.fil
Fil: Muzzio, Marina. University of Stanford; Estados Unidos. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - La Plata. Instituto Multidisciplinario de Biología Celular. Provincia de Buenos Aires. Gobernación. Comisión de Investigaciones Científicas. Instituto Multidisciplinario de Biología Celular. Universidad Nacional de La Plata. Instituto Multidisciplinario de Biología Celular; Argentina. Universidad Nacional de La Plata. Facultad de Ciencias Naturales y Museo; Argentina
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Fil: Rodriguez Flores, Juan L.. Weill Cornell Medical College; Estados Unidos
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Fil: Kenny, Eimear E.. University of Stanford; Estados Unidos. Icahn School of Medicine at Mount Sinai; Estados Unidos
dc.description.fil
Fil: Gignoux, Christopher R.. University of California; Estados Unidos
dc.description.fil
Fil: Maples, Brian K.. University of Stanford; Estados Unidos
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Fil: Guiblet, Wilfried. Universidad de Puerto Rico; Puerto Rico
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Fil: Dutil, Julie. Universidad de Puerto Rico; Puerto Rico
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Fil: Via, Marc. Universidad de Barcelona; España. University of California; Estados Unidos
dc.description.fil
Fil: Sandoval, Karla. University of Stanford; Estados Unidos
dc.description.fil
Fil: Bedoya, Gabriel. Universidad de Antioquía; Colombia
dc.description.fil
Fil: Oleksyk, Taras K.. Universidad de Puerto Rico; Puerto Rico
dc.description.fil
Fil: Ruiz Linares, Andres. University College London; Estados Unidos
dc.description.fil
Fil: Burchard, Esteban G.. University of California; Estados Unidos
dc.description.fil
Fil: Martinez Cruzado, Juan Carlos. Universidad de Puerto Rico; Puerto Rico
dc.description.fil
Fil: Bustamante, Carlos. University of Stanford; Estados Unidos
dc.description.fil
Fil: The 1000 Genomes Project.
dc.journal.title
Plos Genetics
dc.relation.alternativeid
info:eu-repo/semantics/altIdentifier/doi/http://dx.doi.org/10.1371/journal.pgen.1004023
dc.relation.alternativeid
info:eu-repo/semantics/altIdentifier/url/http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1004023
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