Genomic analyses inform on migration events during the peopling of Eurasia

Pagani, Luca, Lawson, Daniel John, Jagoda, Evelyn, Mörseburg, Alexander, Eriksson, Anders, Mitt, Mario, Clemente, Florian, Hudjashov, Georgi, DeGiorgio, Michael, Saag, Lauri, Wall, Jeffrey D., Cardona, Alexia, Mägi, Reedik, Sayres, Melissa A. Wilson, Kaewert, Sarah, Inchley, Charlotte, Scheib, Christiana L., Järve, Mari, Karmin, Monika, Jacobs, Guy S., Antao, Tiago, Iliescu, Florin Mircea, Kushniarevich, Alena, Ayub, Qasim, Tyler-Smith, Chris, Xue, Yali, Yunusbayev, Bayazit, Tambets, Kristiina, Mallick, Chandana Basu, Saag, Lehti, Pocheshkhova, Elvira, Andriadze, George, Muller, Craig, Westaway, Michael C., Lambert, David M., Zoraqi, Grigor, Turdikulova, Shahlo, Dalimova, Dilbar, Sabitov, Zhaxylyk, Sultana, Gazi Nurun Nahar, Lachance, Joseph, Tishkoff, Sarah, Momynaliev, Kuvat, Isakova, Jainagul, Damba, Larisa D., Gubina, Marina, Nymadawa, Pagbajabyn, Evseeva, Irina, Atramentova, Lubov, Utevska, Olga, Ricaut, François-Xavier, Brucato, Nicolas, Sudoyo, Herawati, Letellier, Thierry, Cox, Murray P., Barashkov, Nikolay A., Škaro, Vedrana, Mulahasanovic´, Lejla, Primorac, Dragan, Sahakyan, Hovhannes, Mormina, Maru, Eichstaedt, Christina A., Lichman, Daria V., Abdullah, Syafiq, Chaubey, Gyaneshwer, Wee, Joseph T. S., Mihailov, Evelin, Karunas, Alexandra, Litvinov, Sergei, Khusainova, Rita, Ekomasova, Natalya, Akhmetova, Vita, Khidiyatova, Irina, Marjanović, Damir, Yepiskoposyan, Levon, Behar, Doron M., Balanovska, Elena, Metspalu, Andres, Derenko, Miroslava, Malyarchuk, Boris, Voevoda, Mikhail, Fedorova, Sardana A., Osipova, Ludmila P., Lahr, Marta Mirazón, Gerbault, Pascale, Leavesley, Matthew, Migliano, Andrea Bamberg, Petraglia, Michael, Balanovsky, Oleg, Khusnutdinova, Elza K., Metspalu, Ene, Thomas, Mark G., Manica, Andrea, Nielsen, Rasmus, Villems, Richard, Willerslev, Eske, Kivisild, Toomas, and Metspalu, Mait (2016) Genomic analyses inform on migration events during the peopling of Eurasia. Nature, 538. pp. 238-242.

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Abstract

High-coverage whole-genome sequence studies have so far focused on a limited number1 of geographically restricted populations2, 3, 4, 5, or been targeted at specific diseases, such as cancer6. Nevertheless, the availability of high-resolution genomic data has led to the development of new methodologies for inferring population history7, 8, 9 and refuelled the debate on the mutation rate in humans10. Here we present the Estonian Biocentre Human Genome Diversity Panel (EGDP), a dataset of 483 high-coverage human genomes from 148 populations worldwide, including 379 new genomes from 125 populations, which we group into diversity and selection sets. We analyse this dataset to refine estimates of continent-wide patterns of heterozygosity, long- and short-distance gene flow, archaic admixture, and changes in effective population size through time as well as for signals of positive or balancing selection. We find a genetic signature in present-day Papuans that suggests that at least 2% of their genome originates from an early and largely extinct expansion of anatomically modern humans (AMHs) out of Africa. Together with evidence from the western Asian fossil record11, and admixture between AMHs and Neanderthals predating the main Eurasian expansion12, our results contribute to the mounting evidence for the presence of AMHs out of Africa earlier than 75,000 years ago.

Item ID: 45844
Item Type: Article (Research - C1)
ISSN: 1476-4687
Funders: Estonian Research Infrastructure Roadmap (ERIR), Australian Research Council (ARC), Danish National Research Foundation (DNRF), Lundbeck Foundation (LF), KU2016, European Research Council (ERC), Estonian Research Council (EstRC), EU European Regional Development Fund through the Centre of Excellence in Genomics (CEG), Centre of Excellence for Genomics and Translational Medicine (CEGTM), Estonian Institutional Research (EIR), French Ministry of Foreign and European Affairs and French ANR (FMFEA), Gates Cambridge Trust Funding (GCTF), Institute of Cytology and Genetics - Serbian Branch of the Russian Academy of Sciences (ICG SB RAS), Leverhulme Programme (LP), Ministry of Education and Science of Russia (ME SR), NEFREX grant funded by the European Union, National Institutes of Health (NIH), Russian Foundation for Basic Research (RFBR), Russian Science Foundation (RSF), Russian Humanitarian Scientific Foundation (RHSF), Program of the Basic Research of the Russian Academy of Sciences Presidium (BR RASP), Wellcome Trust (WT), Royal Society (RS), Bristol Advanced Computing Research Centre (BACRC), National Geographic Society (NGS), Program of the Russian Academy of Sciences Presidium (PRASP), Royal Society of New Zealand (RSNZ)
Projects and Grants: ERIR grant no 3.2.0304.11-0312, ARC Discovery grant DP110102635 , ARC Discovery grant DP140101405, ERC Starting Investigator grant FP7 - 261213, EstRC grant PUT766, CEGTM Project No. 2014-2020.4.01.15-0012, EIR grant IUT24-1, EIR grant IUT20-60, FMFEA grant number ANR-14-CE31-0013-01, ICG SB RAS No. VI.58.1.1, LP grant no. RP2011-R-045, ME SR Project 6.656.2014/K , NEFREX People Marie Curie Actions, NEFREX International Research Staff Exchange Scheme, NEFREX call FP7-PEOPLE-2012-IRSES-number 318979, NIH grant 5DP1ES022577 05, NIH grant 1R01DK104339-01, NIH grant 1R01GM113657-01, RFBR grant N 14-06-00180a, RFBR grant 16-04-00890 , RSF grant 14-14-00827 , RFBR grant 14-04-00725-a, RHSF 13-11-02014, WT/RS grant WT104125AIA, WT grant 098051 , WT Senior Research Fellowship grant 100719/Z/12/Z, NGS Young Explorers Grant 8900-11, ERC Consolidator Grant 647787 'LocalAdaptatio', BR RASP "Biological diversity", PRASP "Basic research for the development of the Russian Arctic", RFBR grant 16-06-00303, RSNZ Rutherford Fellowship RDF-10-MAU-001
Date Deposited: 26 Sep 2016 01:50
FoR Codes: 21 HISTORY AND ARCHAEOLOGY > 2101 Archaeology > 210102 Archaeological Science @ 100%
SEO Codes: 95 CULTURAL UNDERSTANDING > 9505 Understanding Past Societies > 950503 Understanding Australias Past @ 50%
95 CULTURAL UNDERSTANDING > 9505 Understanding Past Societies > 950599 Understanding Past Societies not elsewhere classified @ 50%
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