Shared and Unique Components of Human Population Structure and Genome-Wide Signals of Positive Selection in South Asia
Mait Metspalu,Mait Metspalu,Irene Gallego Romero,Bayazit Yunusbayev,Bayazit Yunusbayev,Gyaneshwer Chaubey,Chandana Basu Mallick,Chandana Basu Mallick,Georgi Hudjashov,Georgi Hudjashov,Mari Nelis,Mari Nelis,Reedik Mägi,Reedik Mägi,Ene Metspalu,Maido Remm,Ramasamy Pitchappan,Lalji Singh,Lalji Singh,Kumarasamy Thangaraj,Richard Villems,Richard Villems,Richard Villems,Toomas Kivisild,Toomas Kivisild,Toomas Kivisild +25 more
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TLDR
Modeling of the observed haplotype diversities suggests that both Indian ancestry components are older than the purported Indo-Aryan invasion 3,500 YBP, and consistent with the results of pairwise genetic distances among world regions, Indians share more ancestry signals with West than with East Eurasians.Citations
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Ancient human genomes suggest three ancestral populations for present-day Europeans
Iosif Lazaridis,Iosif Lazaridis,Nick Patterson,Alissa Mittnik,Gabriel Renaud,Swapan Mallick,Swapan Mallick,Karola Kirsanow,Peter H. Sudmant,Joshua G. Schraiber,Joshua G. Schraiber,Sergi Castellano,Mark Lipson,Bonnie Berger,Bonnie Berger,Christos Economou,Ruth Bollongino,Qiaomei Fu,Kirsten I. Bos,Susanne Nordenfelt,Susanne Nordenfelt,Heng Li,Heng Li,Cesare de Filippo,Kay Prüfer,Susanna Sawyer,Cosimo Posth,Wolfgang Haak,Fredrik Hallgren,Elin Fornander,Nadin Rohland,Nadin Rohland,Dominique Delsate,Michael Francken,Jean-Michel Guinet,Joachim Wahl,George Ayodo,Hamza A. Babiker,Hamza A. Babiker,Graciela Bailliet,Elena Balanovska,Oleg Balanovsky,Ramiro Barrantes,Gabriel Bedoya,Haim Ben-Ami,Judit Bene,Fouad Berrada,Claudio M. Bravi,Francesca Brisighelli,George B.J. Busby,Francesco Calì,Mikhail Churnosov,David E. C. Cole,Daniel Corach,Larissa Damba,George van Driem,Stanislav Dryomov,Jean-Michel Dugoujon,Sardana A. Fedorova,Irene Gallego Romero,Marina Gubina,Michael F. Hammer,Brenna M. Henn,Tor Hervig,Ugur Hodoglugil,Aashish R. Jha,Sena Karachanak-Yankova,Rita Khusainova,Elza Khusnutdinova,Rick A. Kittles,Toomas Kivisild,William Klitz,Vaidutis Kučinskas,Alena Kushniarevich,Leila Laredj,Sergey Litvinov,Theologos Loukidis,Theologos Loukidis,Robert W. Mahley,Béla Melegh,Ene Metspalu,Julio Molina,Joanna L. Mountain,Klemetti Näkkäläjärvi,Desislava Nesheva,Thomas B. Nyambo,Ludmila P. Osipova,Jüri Parik,Fedor Platonov,Olga L. Posukh,Valentino Romano,Francisco Rothhammer,Francisco Rothhammer,Igor Rudan,Ruslan Ruizbakiev,Hovhannes Sahakyan,Hovhannes Sahakyan,Antti Sajantila,Antonio Salas,Elena B. Starikovskaya,Ayele Tarekegn,Draga Toncheva,Shahlo Turdikulova,Ingrida Uktveryte,Olga Utevska,René Vasquez,Mercedes Villena,Mikhail Voevoda,Cheryl A. Winkler,Levon Yepiskoposyan,Pierre Zalloua,Pierre Zalloua,Tatijana Zemunik,Alan Cooper,Cristian Capelli,Mark G. Thomas,Andres Ruiz-Linares,Sarah A. Tishkoff,Lalji Singh,Kumarasamy Thangaraj,Richard Villems,Richard Villems,Richard Villems,David Comas,Rem I. Sukernik,Mait Metspalu,Matthias Meyer,Evan E. Eichler,Joachim Burger,Montgomery Slatkin,Svante Pääbo,Janet Kelso,David Reich,David Reich,David Reich,Johannes Krause,Johannes Krause +136 more
TL;DR: It is shown that most present-day Europeans derive from at least three highly differentiated populations: west European hunter-gatherers, who contributed ancestry to all Europeans but not to Near Easterners; ancient north Eurasians related to Upper Palaeolithic Siberians; and early European farmers, who were mainly of Near Eastern origin but also harboured west Europeanhunter-gatherer related ancestry.
Journal ArticleDOI
Genomic insights into the origin of farming in the ancient Near East
Iosif Lazaridis,Dani Nadel,Gary O. Rollefson,Deborah C. Merrett,Nadin Rohland,Swapan Mallick,Swapan Mallick,Daniel Fernandes,Daniel Fernandes,Mario Novak,Beatriz Gamarra,Kendra Sirak,Kendra Sirak,Sarah Connell,Kristin Stewardson,Eadaoin Harney,Qiaomei Fu,Gloria Gonzalez-Fortes,Eppie R. Jones,Songül Alpaslan Roodenberg,György Lengyel,Fanny Bocquentin,Boris Gasparian,Janet Monge,Michael Gregg,Vered Eshed,Ahuva Sivan Mizrahi,Christopher Meiklejohn,Fokke Gerritsen,Luminita Bejenaru,Matthias Blüher,Archie Campbell,Gianpiero L. Cavalleri,David Comas,Philippe Froguel,Edmund Gilbert,Shona M. Kerr,Peter Kovacs,Johannes Krause,Darren McGettigan,Michael Merrigan,D. Andrew Merriwether,Seamus O’Reilly,Martin B. Richards,Ornella Semino,Michel Shamoon-Pour,Gheorghe Stefanescu,Michael Stumvoll,Anke Tönjes,Antonio Torroni,James F. Wilson,Loic Yengo,Nelli Hovhannisyan,Nick Patterson,Ron Pinhasi,David Reich,David Reich +56 more
TL;DR: This paper reported genome-wide ancient DNA from 44 ancient Near Easterners ranging in time between ~12,000 and 1,400 bc, from Natufian hunter-gatherers to Bronze Age farmers, showing that the earliest populations of the Near East derived around half their ancestry from a 'Basal Eurasian' lineage that had little if any Neanderthal admixture and that separated from other non-African lineages before their separation from each other.
Journal ArticleDOI
Runs of homozygosity: windows into population history and trait architecture.
TL;DR: How to identify ROH in genome-wide microarray and sequence data, their distribution in human populations and their application to the understanding of inbreeding depression and disease risk are discussed.
Journal ArticleDOI
The Formation of Human Populations in South and Central Asia
Vagheesh M. Narasimhan,Nick Patterson,Nick Patterson,Priya Moorjani,Nadin Rohland,Nadin Rohland,Rebecca Bernardos,Swapan Mallick,Swapan Mallick,Swapan Mallick,Iosif Lazaridis,Nathan Nakatsuka,Nathan Nakatsuka,Iñigo Olalde,Mark Lipson,Alexander M. Kim,Luca M. Olivieri,Alfredo Coppa,Massimo Vidale,James Mallory,Vyacheslav Moiseyev,Egor Kitov,Egor Kitov,Janet Monge,Nicole Adamski,Nicole Adamski,Neel Alex,Nasreen Broomandkhoshbacht,Nasreen Broomandkhoshbacht,Francesca Candilio,Kimberly Callan,Kimberly Callan,Olivia Cheronet,Olivia Cheronet,Brendan J. Culleton,Matthew Ferry,Matthew Ferry,Daniel Fernandes,Suzanne Freilich,Beatriz Gamarra,Daniel Gaudio,Mateja Hajdinjak,Eadaoin Harney,Eadaoin Harney,Thomas K. Harper,Denise Keating,Ann Marie Lawson,Ann Marie Lawson,Matthew Mah,Matthew Mah,Matthew Mah,Kirsten Mandl,Megan Michel,Megan Michel,Mario Novak,Jonas Oppenheimer,Jonas Oppenheimer,Niraj Rai,Niraj Rai,Kendra Sirak,Kendra Sirak,Kendra Sirak,Viviane Slon,Kristin Stewardson,Kristin Stewardson,Fatma Zalzala,Fatma Zalzala,Zhao Zhang,Gaziz Akhatov,Anatoly N. Bagashev,Alessandra Bagnera,Bauryzhan Baitanayev,Julio Bendezu-Sarmiento,Arman A. Bissembaev,Gian Luca Bonora,T Chargynov,T. A. Chikisheva,Petr K. Dashkovskiy,Anatoly P. Derevianko,Miroslav Dobeš,Katerina Douka,Katerina Douka,Nadezhda Dubova,Meiram N. Duisengali,Dmitry Enshin,Andrey Epimakhov,Alexey Fribus,Dorian Q. Fuller,Dorian Q. Fuller,Alexander Goryachev,Andrey Gromov,S. P. Grushin,Bryan Hanks,Margaret A. Judd,Erlan Kazizov,Aleksander Khokhlov,Aleksander P. Krygin,Elena Kupriyanova,Pavel Kuznetsov,Donata Luiselli,Farhod Maksudov,Aslan M. Mamedov,Talgat B. Mamirov,Christopher Meiklejohn,Deborah C. Merrett,Roberto Micheli,Oleg Mochalov,Samariddin Mustafokulov,Ayushi Nayak,Davide Pettener,Richard Potts,Dmitry Razhev,Marina Petrovna Rykun,Stefania Sarno,Tatyana M. Savenkova,Kulyan Sikhymbaeva,Sergey Mikhailovich Slepchenko,Oroz A. Soltobaev,Nadezhda Stepanova,Svetlana V. Svyatko,Svetlana V. Svyatko,Kubatbek Tabaldiev,Maria Teschler-Nicola,Maria Teschler-Nicola,Alexey A. Tishkin,Vitaly V. Tkachev,Sergey Vasilyev,Petr Velemínský,Dmitriy Voyakin,Antonina Yermolayeva,Muhammad Zahir,Muhammad Zahir,Valery S. Zubkov,A. V. Zubova,Vasant Shinde,Carles Lalueza-Fox,Matthias Meyer,David W. Anthony,Nicole Boivin,Kumarasamy Thangaraj,Douglas J. Kennett,Douglas J. Kennett,Michael D. Frachetti,Ron Pinhasi,Ron Pinhasi,David Reich +145 more
TL;DR: It is shown that Steppe ancestry then integrated further south in the first half of the second millennium BCE, contributing up to 30% of the ancestry of modern groups in South Asia, supporting the idea that the archaeologically documented dispersal of domesticates was accompanied by the spread of people from multiple centers of domestication.
Journal ArticleDOI
Upper Palaeolithic genomes reveal deep roots of modern Eurasians
Eppie R. Jones,Gloria Gonzalez-Fortes,Gloria Gonzalez-Fortes,Sarah Connell,Veronika Siska,Anders Eriksson,Anders Eriksson,Rui Martiniano,Russell L. McLaughlin,Marcos Gallego Llorente,Lara M. Cassidy,Cristina Gamba,Cristina Gamba,Cristina Gamba,Tengiz Meshveliani,Ofer Bar-Yosef,Werner Müller,Anna Belfer-Cohen,Zinovi Matskevich,Nino Jakeli,Thomas Higham,Mathias Currat,David Lordkipanidze,Michael Hofreiter,Andrea Manica,Ron Pinhasi,Ron Pinhasi,Daniel G. Bradley +27 more
TL;DR: It is found that Caucasus hunter-gatherers (CHG) belong to a distinct ancient clade that split from western hunter- Gatherers ∼45 kya, shortly after the expansion of anatomically modern humans into Europe and from the ancestors of Neolithic farmers ∼25 KYa, around the Last Glacial Maximum.
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