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1. Population genomics of post-glacial western Eurasia

Author

Allentoft, Morten E., Sikora, Martin, Refoyo-Martínez, Alba, Irving-Pease, Evan K., Fischer, Anders, Barrie, William, Ingason, Andrés, Stenderup, Jesper, Sjögren, Karl-Göran, Pearson, Alice, Sousa da Mota, Bárbara, Schulz Paulsson, Bettina, Halgren, Alma, Macleod, Ruairidh, Jørkov, Marie Louise Schjellerup, Demeter, Fabrice, Sørensen, Lasse, Nielsen, Poul Otto, Henriksen, Rasmus A., Vimala, Tharsika, McColl, Hugh, Margaryan, Ashot, Ilardo, Melissa, Vaughn, Andrew, Fischer Mortensen, Morten, Nielsen, Anne Birgitte, Ulfeldt Hede, Mikkel, Johannsen, Niels Nørkjær, Rasmussen, Peter, Vinner, Lasse, Renaud, Gabriel, Stern, Aaron, Jensen, Theis Zetner Trolle, Scorrano, Gabriele, Schroeder, Hannes, Lysdahl, Per, Ramsøe, Abigail Daisy, Skorobogatov, Andrei, Schork, Andrew Joseph, Rosengren, Anders, Ruter, Anthony, Outram, Alan, Timoshenko, Aleksey A., Buzhilova, Alexandra, Coppa, Alfredo, Zubova, Alisa, Silva, Ana Maria, Hansen, Anders J., Gromov, Andrey, Logvin, Andrey, Gotfredsen, Anne Birgitte, Henning Nielsen, Bjarne, González-Rabanal, Borja, Lalueza-Fox, Carles, McKenzie, Catriona J., Gaunitz, Charleen, Blasco, Concepción, Liesau, Corina, Martinez-Labarga, Cristina, Pozdnyakov, Dmitri V., Cuenca-Solana, David, Lordkipanidze, David O., En’shin, Dmitri, Salazar-García, Domingo C., Price, T. Douglas, Borić, Dušan, Kostyleva, Elena, Veselovskaya, Elizaveta V., Usmanova, Emma R., Cappellini, Enrico, Brinch Petersen, Erik, Kannegaard, Esben, Radina, Francesca, Eylem Yediay, Fulya, Duday, Henri, Gutiérrez-Zugasti, Igor, Merts, Ilya, Potekhina, Inna, Shevnina, Irina, Altinkaya, Isin, Guilaine, Jean, Hansen, Jesper, Aura Tortosa, Joan Emili, Zilhão, João, Vega, Jorge, Buck Pedersen, Kristoffer, Tunia, Krzysztof, Zhao, Lei, Mylnikova, Liudmila N., Larsson, Lars, Metz, Laure, Yepiskoposyan, Levon, Pedersen, Lisbeth, Sarti, Lucia, Orlando, Ludovic, Slimak, Ludovic, Klassen, Lutz, Blank, Malou, González-Morales, Manuel, Silvestrini, Mara, Vretemark, Maria, Nesterova, Marina S., Rykun, Marina, Rolfo, Mario Federico, Szmyt, Marzena, Przybyła, Marcin, Calattini, Mauro, Sablin, Mikhail, Dobisíková, Miluše, Meldgaard, Morten, Johansen, Morten, Berezina, Natalia, Card, Nick, Saveliev, Nikolai A., Poshekhonova, Olga, Rickards, Olga, Lozovskaya, Olga V., Gábor, Olivér, Uldum, Otto Christian, Aurino, Paola, Kosintsev, Pavel, Courtaud, Patrice, Ríos, Patricia, Mortensen, Peder, Lotz, Per, Persson, Per, Bangsgaard, Pernille, de Barros Damgaard, Peter, Vang Petersen, Peter, Martinez, Pilar Prieto, Włodarczak, Piotr, Smolyaninov, Roman V., Maring, Rikke, Menduiña, Roberto, Badalyan, Ruben, Iversen, Rune, Turin, Ruslan, Vasilyev, Sergey, Wåhlin, Sidsel, Borutskaya, Svetlana, Skochina, Svetlana, Sørensen, Søren Anker, Andersen, Søren H., Jørgensen, Thomas, Serikov, Yuri B., Molodin, Vyacheslav I., Smrcka, Vaclav, Merts, Victor, Appadurai, Vivek, Moiseyev, Vyacheslav, Magnusson, Yvonne, Kjær, Kurt H., Lynnerup, Niels, Lawson, Daniel J., Sudmant, Peter H., Rasmussen, Simon, Korneliussen, Thorfinn Sand, Durbin, Richard, Nielsen, Rasmus, Delaneau, Olivier, Werge, Thomas, Racimo, Fernando, Kristiansen, Kristian, and Willerslev, Eske

Abstract

Western Eurasia witnessed several large-scale human migrations during the Holocene1–5. Here, to investigate the cross-continental effects of these migrations, we shotgun-sequenced 317 genomes—mainly from the Mesolithic and Neolithic periods—from across northern and western Eurasia. These were imputed alongside published data to obtain diploid genotypes from more than 1,600 ancient humans. Our analyses revealed a ‘great divide’ genomic boundary extending from the Black Sea to the Baltic. Mesolithic hunter-gatherers were highly genetically differentiated east and west of this zone, and the effect of the neolithization was equally disparate. Large-scale ancestry shifts occurred in the west as farming was introduced, including near-total replacement of hunter-gatherers in many areas, whereas no substantial ancestry shifts happened east of the zone during the same period. Similarly, relatedness decreased in the west from the Neolithic transition onwards, whereas, east of the Urals, relatedness remained high until around 4,000 bp, consistent with the persistence of localized groups of hunter-gatherers. The boundary dissolved when Yamnaya-related ancestry spread across western Eurasia around 5,000 bp, resulting in a second major turnover that reached most parts of Europe within a 1,000-year span. The genetic origin and fate of the Yamnaya have remained elusive, but we show that hunter-gatherers from the Middle Don region contributed ancestry to them. Yamnaya groups later admixed with individuals associated with the Globular Amphora culture before expanding into Europe. Similar turnovers occurred in western Siberia, where we report new genomic data from a ‘Neolithic steppe’ cline spanning the Siberian forest steppe to Lake Baikal. These prehistoric migrations had profound and lasting effects on the genetic diversity of Eurasian populations.

Published
2024
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2. SUNGIR REVISITED: NEW DATA ON CHRONOLOGY AND STRATIGRAPHY OF THE KEY UPPER PALEOLITHIC SITE, CENTRAL RUSSIAN PLAIN

Author

Kuzmin, Yaroslav V, Boudin, Mathieu, Wojcieszak, Marine, Zazzo, Antoine, van der Sluis, Laura, Stulova, Darya I, Gavrilov, Konstantin N, Veselovskaya, Elizaveta V, and Vasilyev, Sergey V

Abstract

ABSTRACTChronological and stratigraphic frameworks are of the utmost importance for Upper Paleolithic archaeology, physical anthropology, and ecology. Wide ranging radiocarbon (14C) dates were previously obtained for the Sungir burial complex in the central part of European Russia, which is well-known as the richest funeral Paleolithic assemblage in the world yet recorded. The major problem was the contamination caused by consolidants used during the recovery of human bones in the 1960s. The stratigraphy and spatial structure of the Sungir site were also not well understood previously. New radiocarbon and stable isotope data are generated for the Sungir burials. While some dates were younger due to incomplete removal of contamination, the XAD 14C age on S-1 burial (ca. 29,780 BP) was found to be statistically the same as the previously performed HYP 14C age for this burial (ca. 28,890 BP). Four animal bones found in cultural layer below the burial date to ca. 28,800–30,140 BP, suggesting that both this layer and human burials date to roughly this age range. Narrowing these ages further is difficult considering the larger errors of the 14C dates. This shows that future research attempting to 14C date material excavated many years ago needs to eliminate potential contamination from consolidants through analyses such as FTIR, prior to 14C dating. The chronology and stratigraphy of Sungir do not contradict to correlation of its lithic artifacts with the Streletskian assemblage as the East European variant of the Final Szeletian technocomplex (Early Upper Paleolithic).

Published
2022
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3. Publisher Correction: Population genomics of post-glacial western Eurasia

Author

Allentoft, Morten E., Sikora, Martin, Refoyo-Martínez, Alba, Irving-Pease, Evan K., Fischer, Anders, Barrie, William, Ingason, Andrés, Stenderup, Jesper, Sjögren, Karl-Göran, Pearson, Alice, Sousa da Mota, Bárbara, Schulz Paulsson, Bettina, Halgren, Alma, Macleod, Ruairidh, Jørkov, Marie Louise Schjellerup, Demeter, Fabrice, Sørensen, Lasse, Nielsen, Poul Otto, Henriksen, Rasmus A., Vimala, Tharsika, McColl, Hugh, Margaryan, Ashot, Ilardo, Melissa, Vaughn, Andrew, Fischer Mortensen, Morten, Nielsen, Anne Birgitte, Ulfeldt Hede, Mikkel, Johannsen, Niels Nørkjær, Rasmussen, Peter, Vinner, Lasse, Renaud, Gabriel, Stern, Aaron, Jensen, Theis Zetner Trolle, Scorrano, Gabriele, Schroeder, Hannes, Lysdahl, Per, Ramsøe, Abigail Daisy, Skorobogatov, Andrei, Schork, Andrew Joseph, Rosengren, Anders, Ruter, Anthony, Outram, Alan, Timoshenko, Aleksey A., Buzhilova, Alexandra, Coppa, Alfredo, Zubova, Alisa, Silva, Ana Maria, Hansen, Anders J., Gromov, Andrey, Logvin, Andrey, Gotfredsen, Anne Birgitte, Henning Nielsen, Bjarne, González-Rabanal, Borja, Lalueza-Fox, Carles, McKenzie, Catriona J., Gaunitz, Charleen, Blasco, Concepción, Liesau, Corina, Martinez-Labarga, Cristina, Pozdnyakov, Dmitri V., Cuenca-Solana, David, Lordkipanidze, David O., En’shin, Dmitri, Salazar-García, Domingo C., Price, T. Douglas, Borić, Dušan, Kostyleva, Elena, Veselovskaya, Elizaveta V., Usmanova, Emma R., Cappellini, Enrico, Brinch Petersen, Erik, Kannegaard, Esben, Radina, Francesca, Eylem Yediay, Fulya, Duday, Henri, Gutiérrez-Zugasti, Igor, Merts, Ilya, Potekhina, Inna, Shevnina, Irina, Altinkaya, Isin, Guilaine, Jean, Hansen, Jesper, Aura Tortosa, Joan Emili, Zilhão, João, Vega, Jorge, Buck Pedersen, Kristoffer, Tunia, Krzysztof, Zhao, Lei, Mylnikova, Liudmila N., Larsson, Lars, Metz, Laure, Yepiskoposyan, Levon, Pedersen, Lisbeth, Sarti, Lucia, Orlando, Ludovic, Slimak, Ludovic, Klassen, Lutz, Blank, Malou, González-Morales, Manuel, Silvestrini, Mara, Vretemark, Maria, Nesterova, Marina S., Rykun, Marina, Rolfo, Mario Federico, Szmyt, Marzena, Przybyła, Marcin, Calattini, Mauro, Sablin, Mikhail, Dobisíková, Miluše, Meldgaard, Morten, Johansen, Morten, Berezina, Natalia, Card, Nick, Saveliev, Nikolai A., Poshekhonova, Olga, Rickards, Olga, Lozovskaya, Olga V., Gábor, Olivér, Uldum, Otto Christian, Aurino, Paola, Kosintsev, Pavel, Courtaud, Patrice, Ríos, Patricia, Mortensen, Peder, Lotz, Per, Persson, Per, Bangsgaard, Pernille, de Barros Damgaard, Peter, Vang Petersen, Peter, Martinez, Pilar Prieto, Włodarczak, Piotr, Smolyaninov, Roman V., Maring, Rikke, Menduiña, Roberto, Badalyan, Ruben, Iversen, Rune, Turin, Ruslan, Vasilyev, Sergey, Wåhlin, Sidsel, Borutskaya, Svetlana, Skochina, Svetlana, Sørensen, Søren Anker, Andersen, Søren H., Jørgensen, Thomas, Serikov, Yuri B., Molodin, Vyacheslav I., Smrcka, Vaclav, Merts, Victor, Appadurai, Vivek, Moiseyev, Vyacheslav, Magnusson, Yvonne, Kjær, Kurt H., Lynnerup, Niels, Lawson, Daniel J., Sudmant, Peter H., Rasmussen, Simon, Korneliussen, Thorfinn Sand, Durbin, Richard, Nielsen, Rasmus, Delaneau, Olivier, Werge, Thomas, Racimo, Fernando, Kristiansen, Kristian, and Willerslev, Eske

Published
2024
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4. The population history of northeastern Siberia since the Pleistocene

Author

Sikora, Martin, Pitulko, Vladimir V., Sousa, Vitor C., Allentoft, Morten E., Vinner, Lasse, Rasmussen, Simon, Margaryan, Ashot, de Barros Damgaard, Peter, de la Fuente, Constanza, Renaud, Gabriel, Yang, Melinda A., Fu, Qiaomei, Dupanloup, Isabelle, Giampoudakis, Konstantinos, Nogués-Bravo, David, Rahbek, Carsten, Kroonen, Guus, Peyrot, Michaël, McColl, Hugh, Vasilyev, Sergey V., Veselovskaya, Elizaveta, Gerasimova, Margarita, Pavlova, Elena Y., Chasnyk, Vyacheslav G., Nikolskiy, Pavel A., Gromov, Andrei V., Khartanovich, Valeriy I., Moiseyev, Vyacheslav, Grebenyuk, Pavel S., Fedorchenko, Alexander Yu., Lebedintsev, Alexander I., Slobodin, Sergey B., Malyarchuk, Boris A., Martiniano, Rui, Meldgaard, Morten, Arppe, Laura, Palo, Jukka U., Sundell, Tarja, Mannermaa, Kristiina, Putkonen, Mikko, Alexandersen, Verner, Primeau, Charlotte, Baimukhanov, Nurbol, Malhi, Ripan S., Sjögren, Karl-Göran, Kristiansen, Kristian, Wessman, Anna, Sajantila, Antti, Lahr, Marta Mirazon, Durbin, Richard, Nielsen, Rasmus, Meltzer, David J., Excoffier, Laurent, and Willerslev, Eske

Abstract

Northeastern Siberia has been inhabited by humans for more than 40,000 years but its deep population history remains poorly understood. Here we investigate the late Pleistocene population history of northeastern Siberia through analyses of 34 newly recovered ancient genomes that date to between 31,000 and 600 years ago. We document complex population dynamics during this period, including at least three major migration events: an initial peopling by a previously unknown Palaeolithic population of ‘Ancient North Siberians’ who are distantly related to early West Eurasian hunter-gatherers; the arrival of East Asian-related peoples, which gave rise to ‘Ancient Palaeo-Siberians’ who are closely related to contemporary communities from far-northeastern Siberia (such as the Koryaks), as well as Native Americans; and a Holocene migration of other East Asian-related peoples, who we name ‘Neo-Siberians’, and from whom many contemporary Siberians are descended. Each of these population expansions largely replaced the earlier inhabitants, and ultimately generated the mosaic genetic make-up of contemporary peoples who inhabit a vast area across northern Eurasia and the Americas.

Published
2019
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5. Palaeo-Eskimo genetic ancestry and the peopling of Chukotka and North America

Author

Flegontov, Pavel, Altınışık, N. Ezgi, Changmai, Piya, Rohland, Nadin, Mallick, Swapan, Adamski, Nicole, Bolnick, Deborah A., Broomandkhoshbacht, Nasreen, Candilio, Francesca, Culleton, Brendan J., Flegontova, Olga, Friesen, T. Max, Jeong, Choongwon, Harper, Thomas K., Keating, Denise, Kennett, Douglas J., Kim, Alexander M., Lamnidis, Thiseas C., Lawson, Ann Marie, Olalde, Iñigo, Oppenheimer, Jonas, Potter, Ben A., Raff, Jennifer, Sattler, Robert A., Skoglund, Pontus, Stewardson, Kristin, Vajda, Edward J., Vasilyev, Sergey, Veselovskaya, Elizaveta, Hayes, M. Geoffrey, O’Rourke, Dennis H., Krause, Johannes, Pinhasi, Ron, Reich, David, and Schiffels, Stephan

Abstract

Much of the American Arctic was first settled 5,000 years ago, by groups of people known as Palaeo-Eskimos. They were subsequently joined and largely displaced around 1,000 years ago by ancestors of the present-day Inuit and Yup’ik1–3. The genetic relationship between Palaeo-Eskimos and Native American, Inuit, Yup’ik and Aleut populations remains uncertain4–6. Here we present genomic data for 48 ancient individuals from Chukotka, East Siberia, the Aleutian Islands, Alaska, and the Canadian Arctic. We co-analyse these data with data from present-day Alaskan Iñupiat and West Siberian populations and published genomes. Using methods based on rare-allele and haplotype sharing, as well as established techniques4,7–9, we show that Palaeo-Eskimo-related ancestry is ubiquitous among people who speak Na-Dene and Eskimo–Aleut languages. We develop a comprehensive model for the Holocene peopling events of Chukotka and North America, and show that Na-Dene-speaking peoples, people of the Aleutian Islands, and Yup’ik and Inuit across the Arctic region all share ancestry from a single Palaeo-Eskimo-related Siberian source.

Published
2019
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6. The genomic history of southeastern Europe

Author

Mathieson, Iain, Alpaslan-Roodenberg, Songül, Posth, Cosimo, Szécsényi-Nagy, Anna, Rohland, Nadin, Mallick, Swapan, Olalde, Iñigo, Broomandkhoshbacht, Nasreen, Candilio, Francesca, Cheronet, Olivia, Fernandes, Daniel, Ferry, Matthew, Gamarra, Beatriz, Fortes, Gloria González, Haak, Wolfgang, Harney, Eadaoin, Jones, Eppie, Keating, Denise, Krause-Kyora, Ben, Kucukkalipci, Isil, Michel, Megan, Mittnik, Alissa, Nägele, Kathrin, Novak, Mario, Oppenheimer, Jonas, Patterson, Nick, Pfrengle, Saskia, Sirak, Kendra, Stewardson, Kristin, Vai, Stefania, Alexandrov, Stefan, Alt, Kurt W., Andreescu, Radian, Antonović, Dragana, Ash, Abigail, Atanassova, Nadezhda, Bacvarov, Krum, Gusztáv, Mende Balázs, Bocherens, Hervé, Bolus, Michael, Boroneanţ, Adina, Boyadzhiev, Yavor, Budnik, Alicja, Burmaz, Josip, Chohadzhiev, Stefan, Conard, Nicholas J., Cottiaux, Richard, Čuka, Maja, Cupillard, Christophe, Drucker, Dorothée G., Elenski, Nedko, Francken, Michael, Galabova, Borislava, Ganetsovski, Georgi, Gély, Bernard, Hajdu, Tamás, Handzhyiska, Veneta, Harvati, Katerina, Higham, Thomas, Iliev, Stanislav, Janković, Ivor, Karavanić, Ivor, Kennett, Douglas J., Komšo, Darko, Kozak, Alexandra, Labuda, Damian, Lari, Martina, Lazar, Catalin, Leppek, Maleen, Leshtakov, Krassimir, Vetro, Domenico Lo, Los, Dženi, Lozanov, Ivaylo, Malina, Maria, Martini, Fabio, McSweeney, Kath, Meller, Harald, Menđušić, Marko, Mirea, Pavel, Moiseyev, Vyacheslav, Petrova, Vanya, Price, T. Douglas, Simalcsik, Angela, Sineo, Luca, Šlaus, Mario, Slavchev, Vladimir, Stanev, Petar, Starović, Andrej, Szeniczey, Tamás, Talamo, Sahra, Teschler-Nicola, Maria, Thevenet, Corinne, Valchev, Ivan, Valentin, Frédérique, Vasilyev, Sergey, Veljanovska, Fanica, Venelinova, Svetlana, Veselovskaya, Elizaveta, Viola, Bence, Virag, Cristian, Zaninović, Joško, Zäuner, Steve, Stockhammer, Philipp W., Catalano, Giulio, Krauß, Raiko, Caramelli, David, Zariņa, Gunita, Gaydarska, Bisserka, Lillie, Malcolm, Nikitin, Alexey G., Potekhina, Inna, Papathanasiou, Anastasia, Borić, Dušan, Bonsall, Clive, Krause, Johannes, Pinhasi, Ron, and Reich, David

Abstract

Farming was first introduced to Europe in the mid-seventh millennium bc, and was associated with migrants from Anatolia who settled in the southeast before spreading throughout Europe. Here, to understand the dynamics of this process, we analysed genome-wide ancient DNA data from 225 individuals who lived in southeastern Europe and surrounding regions between 12000 and 500 bc. We document a west–east cline of ancestry in indigenous hunter-gatherers and, in eastern Europe, the early stages in the formation of Bronze Age steppe ancestry. We show that the first farmers of northern and western Europe dispersed through southeastern Europe with limited hunter-gatherer admixture, but that some early groups in the southeast mixed extensively with hunter-gatherers without the sex-biased admixture that prevailed later in the north and west. We also show that southeastern Europe continued to be a nexus between east and west after the arrival of farmers, with intermittent genetic contact with steppe populations occurring up to 2,000 years earlier than the migrations from the steppe that ultimately replaced much of the population of northern Europe.

Published
2018
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