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  1. Genome-wide ancestry of 17th-century enslaved Africans from the Caribbean.

    PNAS 112(12):3669 (2015) PMID 25755263 PMCID PMC4378422

    Between 1500 and 1850, more than 12 million enslaved Africans were transported to the New World. The vast majority were shipped from West and West-Central Africa, but their precise origins are largely unknown. We used genome-wide ancient DNA analyses to investigate the genetic origins of three e...
  2. Prehistoric genomes reveal the genetic foundation and cost of horse domestication.

    PNAS 111(52):E5661 (2014) PMID 25512547 PMCID PMC4284583

    The domestication of the horse ∼5.5 kya and the emergence of mounted riding, chariotry, and cavalry dramatically transformed human civilization. However, the genetics underlying horse domestication are difficult to reconstruct, given the near extinction of wild horses. We therefore sequenced two...
  3. Speciation with gene flow in equids despite extensive chromosomal plasticity.

    PNAS 111(52):18655 (2014) PMID 25453089 PMCID PMC4284605

    Horses, asses, and zebras belong to a single genus, Equus, which emerged 4.0-4.5 Mya. Although the equine fossil record represents a textbook example of evolution, the succession of events that gave rise to the diversity of species existing today remains unclear. Here we present six genomes from...
  4. Comparative genomics reveals insights into avian genome evolution and adaptation.

    Science 346(6215):1311 (2014) PMID 25504712 PMCID PMC4390078

    Birds are the most species-rich class of tetrapod vertebrates and have wide relevance across many research fields. We explored bird macroevolution using full genomes from 48 avian species representing all major extant clades. The avian genome is principally characterized by its constrained size,...
  5. Whole-genome analyses resolve early branches in the tree of life of modern birds.
    Erich D Jarvis, Siavash Mirarab, Andre J Aberer, Bo Li, Peter Houde, Cai Li, Simon Y W Ho, Brant C Faircloth, Benoit Nabholz, Jason T Howard, Alexander Suh, Claudia Weber, Rute da Fonseca, Jianwen Li, Fang Zhang, Hui Li, Long Zhou, Nitish Narula, Liang Liu, Ganesh Ganapathy, Bastien Boussau, Md Shamsuzzoha Bayzid, Volodymyr Zavidovych, Sankar Subramanian, Toni Gabaldón, Salvador Capella-Gutiérrez, Jaime Huerta-Cepas, Bhanu Rekepalli, Kasper Munch, Mikkel Schierup, Bent Lindow, Wesley C Warren, David Ray, Richard E Green, Michael W Bruford, Xiangjiang Zhan, Andrew Dixon, Shengbin Li, Ning Li, Yinhua Huang, Elizabeth P Derryberry, Mads Frost Bertelsen, Frederick H Sheldon, Robb T Brumfield, Claudio V Mello, Peter V Lovell, Morgan Wirthlin, Maria Paula Cruz Schneider, Francisco Prosdocimi, José Alfredo Samaniego, Amhed Missael Vargas Velazquez, Alonzo Alfaro-Núñez, Paula F Campos, Bent Petersen, Thomas Sicheritz-Ponten, An Pas, Tom Bailey, Paul Scofield, Michael Bunce, David M Lambert, Qi Zhou, Polina Perelman, Amy C Driskell, Beth Shapiro, Zijun Xiong, Yongli Zeng, Shiping Liu, Zhenyu Li, Binghang Liu, Kui Wu, Jin Xiao, Xiong Yinqi, Qiuemei Zheng, Yong Zhang, Huanming Yang, Jian Wang, Linnea Smeds, Frank E Rheindt, Michael Braun, Jon Fjeldsa, Ludovic Orlando, F Keith Barker, Knud Andreas Jønsson, Warren Johnson, Klaus-Peter Koepfli, Stephen O'Brien, David Haussler, Oliver A Ryder, Carsten Rahbek, Eske Willerslev, Gary R Graves, Travis C Glenn, John McCormack, Dave Burt, Hans Ellegren, Per Alström, Scott V Edwards, Alexandros Stamatakis, David P Mindell, Joel Cracraft, Edward L Braun, Tandy Warnow, Wang Jun, M Thomas P Gilbert, and Guojie Zhang

    Science 346(6215):1320 (2014) PMID 25504713 PMCID PMC4405904

    To better determine the history of modern birds, we performed a genome-scale phylogenetic analysis of 48 species representing all orders of Neoaves using phylogenomic methods created to handle genome-scale data. We recovered a highly resolved tree that confirms previously controversial sister or...
  6. Paleogenomics. Genomic structure in Europeans dating back at least 36,200 years.

    Science 346(6213):1113 (2014) PMID 25378462

    The origin of contemporary Europeans remains contentious. We obtained a genome sequence from Kostenki 14 in European Russia dating from 38,700 to 36,200 years ago, one of the oldest fossils of anatomically modern humans from Europe. We find that Kostenki 14 shares a close ancestry with the 24,00...
  7. Two ancient human genomes reveal Polynesian ancestry among the indigenous Botocudos of Brazil.

    Current Biology 24(21):R1035 (2014) PMID 25455029 PMCID PMC4370112

    Understanding the peopling of the Americas remains an important and challenging question. Here, we present (14)C dates, and morphological, isotopic and genomic sequence data from two human skulls from the state of Minas Gerais, Brazil, part of one of the indigenous groups known as 'Botocudos'. W...
  8. Evolution. An epigenetic window into the past?

    Science 345(6196):511 (2014) PMID 25082684

  9. Rodents of the Caribbean: origin and diversification of hutias unravelled by next-generation museomics.

    Biology Letters 10(7) (2014) PMID 25115033 PMCID PMC4126619

    The Capromyidae (hutias) are endemic rodents of the Caribbean and represent a model of dispersal for non-flying mammals in the Greater Antilles. This family has experienced severe extinctions during the Holocene and its phylogenetic affinities with respect to other caviomorph relatives are still...
  10. A 400,000-year-old mitochondrial genome questions phylogenetic relationships amongst archaic hominins: using the latest advances in ancient genomics, the mitochondrial genome sequence of a 400,000-year-old hominin has been deciphered.

    Bioessays 36(6):598 (2014) PMID 24706482

    By combining state-of-the-art approaches in ancient genomics, Meyer and co-workers have reconstructed the mitochondrial sequence of an archaic hominin that lived at Sierra de Atapuerca, Spain about 400,000 years ago. This achievement follows recent advances in molecular anthropology that deliver...