A genomic view of the peopling of the americas

Whole-genome studies have documented that most Native American ancestry stems from a single population that diversified within the continent more than twelve thousand years ago. However, this shared ancestry hides a more complex history whereby at least four distinct streams of Eurasian migration have contributed to present-day and prehistoric Native American populations. Whole genome studies enhanced by technological breakthroughs in ancient DNA now provide evidence of a sequence of events involving initial migrations from a structured Northeast Asian source population with differential relatedness to present-day Australasian populations, followed by a divergence into northern and southern Native American lineages. During the Holocene, new migrations from Asia introduced the Saqqaq/Dorset Paleoeskimo population to the North American Arctic ∼4500 years ago, ancestry that is potentially connected with ancestry found in Athabaskan-speakers today. This was then followed by a major new population turnover in the high Arctic involving Thule-related peoples who are the ancestors of present-day Inuit. We highlight several open questions that could be addressed through future genomic research.

[1]  Mattias Jakobsson,et al.  The genome of a Late Pleistocene human from a Clovis burial site in western Montana , 2014, Nature.

[2]  A genomic view of the peopling of the americas , 2016 .

[3]  D. O’Rourke,et al.  Two contemporaneous mitogenomes from terminal Pleistocene burials in eastern Beringia , 2015, Proceedings of the National Academy of Sciences.

[4]  Deborah A. Bolnick,et al.  Does Mitochondrial Haplogroup X Indicate Ancient Trans-Atlantic Migration to the Americas? A Critical Re-Evaluation , 2015 .

[5]  J V Neel,et al.  Asian affinities and continental radiation of the four founding Native American mtDNAs. , 1993, American journal of human genetics.

[6]  J. Hey.  On the Number of New World Founders: A Population Genetic Portrait of the Peopling of the Americas , 2005, PLoS biology.

[7]  H. Gregory McDonald,et al.  Pre-Clovis Mastodon Hunting 13,800 Years Ago at the Manis Site, Washington , 2011, Science.

[8]  D. Reich,et al.  Genetic evidence for two founding populations of the Americas , 2015, Nature.

[9]  Sohini Ramachandran,et al.  Support from the relationship of genetic and geographic distance in human populations for a serial founder effect originating in Africa. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[10]  M. Hofreiter,et al.  Clovis Age Western Stemmed Projectile Points and Human Coprolites at the Paisley Caves , 2012, Science.

[11]  R. Mägi,et al.  Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans , 2013, Nature.

[12]  M. Hofreiter,et al.  DNA from Pre-Clovis Human Coprolites in Oregon, North America , 2008, Science.

[13]  D. Conrad,et al.  Haplotypic background of a private allele at high frequency in the Americas. , 2009, Molecular biology and evolution.

[14]  Ryan D. Hernandez,et al.  Inferring the Joint Demographic History of Multiple Populations from Multidimensional SNP Frequency Data , 2009, PLoS genetics.

[15]  M. Miyamoto,et al.  Updated Three-Stage Model for the Peopling of the Americas , 2008, PloS one.

[16]  W. Neves,et al.  Early Holocene human skeletal remains from Santana do Riacho, Brazil: implications for the settlement of the New World. , 2003, Journal of human evolution.

[17]  Cris E. Hughes,et al.  Patterns of Admixture and Population Structure in Native Populations of Northwest North America , 2014, PLoS genetics.

[18]  A. Krogh,et al.  Ancient human genome sequence of an extinct Palaeo-Eskimo , 2010, Nature.

[19]  Jonas Binladen,et al.  Monte Verde: Seaweed, Food, Medicine, and the Peopling of South America , 2008, Science.

[20]  Peter Bellwood.  First Migrants: Ancient Migration in Global Perspective , 2013 .

[21]  J. Dipierri,et al.  Beringian Standstill and Spread of Native American Founders , 2007, PloS one.

[22]  L. Excoffier,et al.  A statistical evaluation of models for the initial settlement of the american continent emphasizes the importance of gene flow with Asia. , 2010, Molecular biology and evolution.

[23]  Cristina E. Valdiosera,et al.  The ancestry and affiliations of Kennewick Man , 2015, Nature.

[24]  B. Bradley,et al.  The North Atlantic ice-edge corridor: A possible Palaeolithic route to the New World , 2004 .

[25]  Zachary A. Szpiech,et al.  Genotype, haplotype and copy-number variation in worldwide human populations , 2008, Nature.

[26]  Omar E. Cornejo,et al.  The genetic prehistory of the New World Arctic , 2014, Science.

[27]  S. Pääbo.  Ancient DNA: extraction, characterization, molecular cloning, and enzymatic amplification. , 1989, Proceedings of the National Academy of Sciences of the United States of America.

[28]  S. Horai,et al.  Peopling of the Americas, founded by four major lineages of mitochondrial DNA. , 1994, Molecular biology and evolution.

[29]  T. Goebel,et al.  The Late Pleistocene Dispersal of Modern Humans in the Americas , 2008, Science.

[30]  David B. Witonsky,et al.  Reconstructing Native American Population History , 2012, Nature.

[31]  M. Feldman,et al.  Worldwide Human Relationships Inferred from Genome-Wide Patterns of Variation , 2008 .

[32]  Bonnie Berger,et al.  Efficient Moment-Based Inference of Admixture Parameters and Sources of Gene Flow , 2012, Molecular biology and evolution.

[33]  D. Reich,et al.  The genetic history of Ice Age Europe , 2016, Nature.

[34]  M. Suchard,et al.  Bison phylogeography constrains dispersal and viability of the Ice Free Corridor in western Canada , 2016, Proceedings of the National Academy of Sciences.

[35]  Cristina E. Valdiosera,et al.  Ancient mitochondrial DNA provides high-resolution time scale of the peopling of the Americas , 2016, Science Advances.

[36]  Mattias Jakobsson,et al.  Genetic Variation and Population Structure in Native Americans , 2007, PLoS genetics.

[37]  Rolando González-José,et al.  The peopling of America: craniofacial shape variation on a continental scale and its interpretation from an interdisciplinary view. , 2008, American journal of physical anthropology.

[38]  W. Knowler,et al.  Dramatic founder effects in Amerindian mitochondrial DNAs. , 1985, American journal of physical anthropology.

[39]  Natalie M. Myres,et al.  Distinctive Paleo-Indian Migration Routes from Beringia Marked by Two Rare mtDNA Haplogroups , 2009, Current Biology.

[40]  K. Weiss,et al.  Native American mitochondrial DNA analysis indicates that the Amerind and the Nadene populations were founded by two independent migrations. , 1992, Genetics.

[41]  V. Pitulko,et al.  The Yana RHS Site: Humans in the Arctic Before the Last Glacial Maximum , 2004, Science.

[42]  R. Durbin,et al.  Inferring human population size and separation history from multiple genome sequences , 2014, Nature Genetics.

[43]  Mattias Jakobsson,et al.  Genomic evidence for the Pleistocene and recent population history of Native Americans , 2015, Science.