TY - JOUR A1 - Wutke, Saskia A1 - Sandoval-Castellanos, Edson A1 - Benecke, Norbert A1 - Döhle, Hans-Jürgen A1 - Friederich, Susanne A1 - Gonzalez, Javier A1 - Hofreiter, Michael A1 - Lougas, Lembi A1 - Magnell, Ola A1 - Malaspinas, Anna-Sapfo A1 - Morales-Muniz, Arturo A1 - Orlando, Ludovic A1 - Reissmann, Monika A1 - Trinks, Alexandra A1 - Ludwig, Arne T1 - Decline of genetic diversity in ancient domestic stallions in Europe JF - Science Advances N2 - Present-day domestic horses are immensely diverse in their maternally inherited mitochondrial DNA, yet they show very little variation on their paternally inherited Y chromosome. Although it has recently been shown that Y chromosomal diversity in domestic horses was higher at least until the Iron Age, when and why this diversity disappeared remain controversial questions. We genotyped 16 recently discovered Y chromosomal single-nucleotide polymorphisms in 96 ancient Eurasian stallions spanning the early domestication stages (Copper and Bronze Age) to the Middle Ages. Using this Y chromosomal time series, which covers nearly the entire history of horse domestication, we reveal how Y chromosomal diversity changed over time. Our results also show that the lack of multiple stallion lineages in the extant domestic population is caused by neither a founder effect nor random demographic effects but instead is the result of artificial selection-initially during the Iron Age by nomadic people from the Eurasian steppes and later during the Roman period. Moreover, the modern domestic haplotype probably derived from another, already advantageous, haplotype, most likely after the beginning of the domestication. In line with recent findings indicating that the Przewalski and domestic horse lineages remained connected by gene flow after they diverged about 45,000 years ago, we present evidence for Y chromosomal introgression of Przewalski horses into the gene pool of European domestic horses at least until medieval times. Y1 - 2018 U6 - https://doi.org/10.1126/sciadv.aap9691 SN - 2375-2548 VL - 4 IS - 4 PB - American Assoc. for the Advancement of Science CY - Washington ER - TY - JOUR A1 - Fages, Antoine A1 - Hanghoj, Kristian A1 - Khan, Naveed A1 - Gaunitz, Charleen A1 - Seguin-Orlando, Andaine A1 - Leonardi, Michela A1 - Constantz, Christian McCrory A1 - Gamba, Cristina A1 - Al-Rasheid, Khaled A. S. A1 - Albizuri, Silvia A1 - Alfarhan, Ahmed H. A1 - Allentoft, Morten A1 - Alquraishi, Saleh A1 - Anthony, David A1 - Baimukhanov, Nurbol A1 - Barrett, James H. A1 - Bayarsaikhan, Jamsranjav A1 - Benecke, Norbert A1 - Bernaldez-Sanchez, Eloisa A1 - Berrocal-Rangel, Luis A1 - Biglari, Fereidoun A1 - Boessenkool, Sanne A1 - Boldgiv, Bazartseren A1 - Brem, Gottfried A1 - Brown, Dorcas A1 - Burger, Joachim A1 - Crubezy, Eric A1 - Daugnora, Linas A1 - Davoudi, Hossein A1 - Damgaard, Peter de Barros A1 - de Chorro y de Villa-Ceballos, Maria de los Angeles A1 - Deschler-Erb, Sabine A1 - Detry, Cleia A1 - Dill, Nadine A1 - Oom, Maria do Mar A1 - Dohr, Anna A1 - Ellingvag, Sturla A1 - Erdenebaatar, Diimaajav A1 - Fathi, Homa A1 - Felkel, Sabine A1 - Fernandez-Rodriguez, Carlos A1 - Garcia-Vinas, Esteban A1 - Germonpre, Mietje A1 - Granado, Jose D. A1 - Hallsson, Jon H. A1 - Hemmer, Helmut A1 - Hofreiter, Michael A1 - Kasparov, Aleksei A1 - Khasanov, Mutalib A1 - Khazaeli, Roya A1 - Kosintsev, Pavel A1 - Kristiansen, Kristian A1 - Kubatbek, Tabaldiev A1 - Kuderna, Lukas A1 - Kuznetsov, Pavel A1 - Laleh, Haeedeh A1 - Leonard, Jennifer A. A1 - Lhuillier, Johanna A1 - von Lettow-Vorbeck, Corina Liesau A1 - Logvin, Andrey A1 - Lougas, Lembi A1 - Ludwig, Arne A1 - Luis, Cristina A1 - Arruda, Ana Margarida A1 - Marques-Bonet, Tomas A1 - Silva, Raquel Matoso A1 - Merz, Victor A1 - Mijiddorj, Enkhbayar A1 - Miller, Bryan K. A1 - Monchalov, Oleg A1 - Mohaseb, Fatemeh A. A1 - Morales, Arturo A1 - Nieto-Espinet, Ariadna A1 - Nistelberger, Heidi A1 - Onar, Vedat A1 - Palsdottir, Albina H. A1 - Pitulko, Vladimir A1 - Pitskhelauri, Konstantin A1 - Pruvost, Melanie A1 - Sikanjic, Petra Rajic A1 - Papesa, Anita Rapan A1 - Roslyakova, Natalia A1 - Sardari, Alireza A1 - Sauer, Eberhard A1 - Schafberg, Renate A1 - Scheu, Amelie A1 - Schibler, Jorg A1 - Schlumbaum, Angela A1 - Serrand, Nathalie A1 - Serres-Armero, Aitor A1 - Shapiro, Beth A1 - Seno, Shiva Sheikhi A1 - Shevnina, Irina A1 - Shidrang, Sonia A1 - Southon, John A1 - Star, Bastiaan A1 - Sykes, Naomi A1 - Taheri, Kamal A1 - Taylor, William A1 - Teegen, Wolf-Rudiger A1 - Vukicevic, Tajana Trbojevic A1 - Trixl, Simon A1 - Tumen, Dashzeveg A1 - Undrakhbold, Sainbileg A1 - Usmanova, Emma A1 - Vahdati, Ali A1 - Valenzuela-Lamas, Silvia A1 - Viegas, Catarina A1 - Wallner, Barbara A1 - Weinstock, Jaco A1 - Zaibert, Victor A1 - Clavel, Benoit A1 - Lepetz, Sebastien A1 - Mashkour, Marjan A1 - Helgason, Agnar A1 - Stefansson, Kari A1 - Barrey, Eric A1 - Willerslev, Eske A1 - Outram, Alan K. A1 - Librado, Pablo A1 - Orlando, Ludovic T1 - Tracking five millennia of horse management with extensive ancient genome time series JF - Cell N2 - Horse domestication revolutionized warfare and accelerated travel, trade, and the geographic expansion of languages. Here, we present the largest DNA time series for a non-human organism to date, including genome-scale data from 149 ancient animals and 129 ancient genomes (>= 1-fold coverage), 87 of which are new. This extensive dataset allows us to assess the modem legacy of past equestrian civilisations. We find that two extinct horse lineages existed during early domestication, one at the far western (Iberia) and the other at the far eastern range (Siberia) of Eurasia. None of these contributed significantly to modern diversity. We show that the influence of Persian-related horse lineages increased following the Islamic conquests in Europe and Asia. Multiple alleles associated with elite-racing, including at the MSTN "speed gene," only rose in popularity within the last millennium. Finally, the development of modem breeding impacted genetic diversity more dramatically than the previous millennia of human management. Y1 - 2019 U6 - https://doi.org/10.1016/j.cell.2019.03.049 SN - 0092-8674 SN - 1097-4172 VL - 177 IS - 6 SP - 1419 EP - 1435 PB - Cell Press CY - Cambridge ER - TY - JOUR A1 - Librado, Pablo A1 - Gamba, Cristina A1 - Gaunitz, Charleen A1 - Sarkissian, Clio Der A1 - Pruvost, Melanie A1 - Albrechtsen, Anders A1 - Fages, Antoine A1 - Khan, Naveed A1 - Schubert, Mikkel A1 - Jagannathan, Vidhya A1 - Serres-Armero, Aitor A1 - Kuderna, Lukas F. K. A1 - Povolotskaya, Inna S. A1 - Seguin-Orlando, Andaine A1 - Lepetz, Sebastien A1 - Neuditschko, Markus A1 - Theves, Catherine A1 - Alquraishi, Saleh A. A1 - Alfarhan, Ahmed H. A1 - Al-Rasheid, Khaled A. S. A1 - Rieder, Stefan A1 - Samashev, Zainolla A1 - Francfort, Henri-Paul A1 - Benecke, Norbert A1 - Hofreiter, Michael A1 - Ludwig, Arne A1 - Keyser, Christine A1 - Marques-Bonet, Tomas A1 - Ludes, Bertrand A1 - Crubezy, Eric A1 - Leeb, Tosso A1 - Willerslev, Eske A1 - Orlando, Ludovic T1 - Ancient genomic changes associated with domestication of the horse JF - Science N2 - The genomic changes underlying both early and late stages of horse domestication remain largely unknown. We examined the genomes of 14 early domestic horses from the Bronze and Iron Ages, dating to between similar to 4.1 and 2.3 thousand years before present. We find early domestication selection patterns supporting the neural crest hypothesis, which provides a unified developmental origin for common domestic traits. Within the past 2.3 thousand years, horses lost genetic diversity and archaic DNA tracts introgressed from a now-extinct lineage. They accumulated deleterious mutations later than expected under the cost-of-domestication hypothesis, probably because of breeding from limited numbers of stallions. We also reveal that Iron Age Scythian steppe nomads implemented breeding strategies involving no detectable inbreeding and selection for coat-color variation and robust forelimbs. Y1 - 2017 U6 - https://doi.org/10.1126/science.aam5298 SN - 0036-8075 SN - 1095-9203 VL - 356 SP - 442 EP - 445 PB - American Assoc. for the Advancement of Science CY - Washington ER - TY - GEN A1 - Wutke, Saskia A1 - Andersson, Leif A1 - Benecke, Norbert A1 - Sandoval-Castellanos, Edson A1 - Gonzalez, Javier A1 - Hallsson, Jon Hallsteinn A1 - Lougas, Lembi A1 - Magnell, Ola A1 - Morales-Muniz, Arturo A1 - Orlando, Ludovic A1 - Palsdottir, Albina Hulda A1 - Reissmann, Monika A1 - Munoz-Rodriguez, Mariana B. A1 - Ruttkay, Matej A1 - Trinks, Alexandra A1 - Hofreiter, Michael A1 - Ludwig, Arne T1 - The origin of ambling horses T2 - Current biology N2 - Horseback riding is the most fundamental use of domestic horses and has had a huge influence on the development of human societies for millennia. Over time, riding techniques and the style of riding improved. Therefore, horses with the ability to perform comfortable gaits (e.g. ambling or pacing), so-called ‘gaited’ horses, have been highly valued by humans, especially for long distance travel. Recently, the causative mutation for gaitedness in horses has been linked to a substitution causing a premature stop codon in the DMRT3 gene (DMRT3_Ser301STOP) [1]. In mice, Dmrt3 is expressed in spinal cord interneurons and plays an important role in the development of limb movement coordination [1]. Genotyping the position in 4396 modern horses from 141 breeds revealed that nowadays the mutated allele is distributed worldwide with an especially high frequency in gaited horses and breeds used for harness racing [2]. Here, we examine historic horse remains for the DMRT3 SNP, tracking the origin of gaitedness to Medieval England between 850 and 900 AD. The presence of the corresponding allele in Icelandic horses (9th–11th century) strongly suggests that ambling horses were brought from the British Isles to Iceland by Norse people. Considering the high frequency of the ambling allele in early Icelandic horses, we believe that Norse settlers selected for this comfortable mode of horse riding soon after arrival. The absence of the allele in samples from continental Europe (including Scandinavia) at this time implies that ambling horses may have spread from Iceland and maybe also the British Isles across the continent at a later date. Y1 - 2016 U6 - https://doi.org/10.1016/j.cub.2016.07.001 SN - 0960-9822 SN - 1879-0445 VL - 26 SP - R697 EP - R699 PB - Cell Press CY - Cambridge ER - TY - JOUR A1 - Wutke, Saskia A1 - Benecke, Norbert A1 - Sandoval-Castellanos, Edson A1 - Döhle, Hans-Jürgen A1 - Friederich, Susanne A1 - Gonzalez Soto, Javier Esteban A1 - Hallsson, Jon Hallsteinn A1 - Hofreiter, Michael A1 - Lougas, Lembi A1 - Magnell, Ola A1 - Morales-Muniz, Arturo A1 - Orlando, Ludovic A1 - Palsdottir, Albina Hulda A1 - Reissmann, Monika A1 - Ruttkay, Matej A1 - Trinks, Alexandra A1 - Ludwig, Arne T1 - Spotted phenotypes in horses lost attractiveness in the Middle Ages JF - Scientific reports N2 - Horses have been valued for their diversity of coat colour since prehistoric times; this is especially the case since their domestication in the Caspian steppe in similar to 3,500 BC. Although we can assume that human preferences were not constant, we have only anecdotal information about how domestic horses were influenced by humans. Our results from genotype analyses show a significant increase in spotted coats in early domestic horses (Copper Age to Iron Age). In contrast, medieval horses carried significantly fewer alleles for these phenotypes, whereas solid phenotypes (i.e., chestnut) became dominant. This shift may have been supported because of (i) pleiotropic disadvantages, (ii) a reduced need to separate domestic horses from their wild counterparts, (iii) a lower religious prestige, or (iv) novel developments in weaponry. These scenarios may have acted alone or in combination. However, the dominance of chestnut is a remarkable feature of the medieval horse population. Y1 - 2016 U6 - https://doi.org/10.1038/srep38548 SN - 2045-2322 VL - 6 PB - Nature Publ. Group CY - London ER - TY - JOUR A1 - Schubert, Mikkel A1 - Jonsson, Hakon A1 - Chang, Dan A1 - Sarkissian, Clio Der A1 - Ermini, Luca A1 - Ginolhac, Aurelien A1 - Albrechtsen, Anders A1 - Dupanloup, Isabelle A1 - Foucal, Adrien A1 - Petersen, Bent Larsen A1 - Fumagalli, Matteo A1 - Raghavan, Maanasa A1 - Seguin-Orlando, Andaine A1 - Korneliussen, Thorfinn S. A1 - Velazquez, Amhed M. V. A1 - Stenderup, Jesper A1 - Hoover, Cindi A. A1 - Rubin, Carl-Johan A1 - Alfarhan, Ahmed H. A1 - Alquraishi, Saleh A. A1 - Al-Rasheid, Khaled A. S. A1 - MacHugh, David E. A1 - Kalbfleisch, Ted A1 - MacLeod, James N. A1 - Rubin, Edward M. A1 - Sicheritz-Ponten, Thomas A1 - Andersson, Leif A1 - Hofreiter, Michael A1 - Marques-Bonet, Tomas A1 - Gilbert, M. Thomas P. A1 - Nielsen, Rasmus A1 - Excoffier, Laurent A1 - Willerslev, Eske A1 - Shapiro, Beth A1 - Orlando, Ludovic T1 - Prehistoric genomes reveal the genetic foundation and cost of horse domestication JF - Proceedings of the National Academy of Sciences of the United States of America Y1 - 2014 U6 - https://doi.org/10.1073/pnas.1416991111 SN - 0027-8424 VL - 111 IS - 52 SP - E5661 EP - E5669 PB - National Acad. of Sciences CY - Washington ER - TY - JOUR A1 - Zhang, Hucai A1 - Paijmans, Johanna L. A. A1 - Chang, Fengqin A1 - Wu, Xiaohong A1 - Chen, Guangjie A1 - Lei, Chuzhao A1 - Yang, Xiujuan A1 - Wei, Zhenyi A1 - Bradley, Daniel G. A1 - Orlando, Ludovic A1 - O'Connor, Terry A1 - Hofreiter, Michael T1 - Morphological and genetic evidence for early Holocene cattle management in northeastern China JF - Nature Communications N2 - The domestication of cattle is generally accepted to have taken place in two independent centres: around 10,500 years ago in the Near East, giving rise to modern taurine cattle, and two millennia later in southern Asia, giving rise to zebu cattle. Here we provide firmly dated morphological and genetic evidence for early Holocene management of taurine cattle in northeastern China. We describe conjoining mandibles from this region that show evidence of oral stereotypy, dated to the early Holocene by two independent C-14 dates. Using Illumina high-throughput sequencing coupled with DNA hybridization capture, we characterize 15,406 bp of the mitogenome with on average 16.7-fold coverage. Phylogenetic analyses reveal a hitherto unknown mitochondrial haplogroup that falls outside the known taurine diversity. Our data suggest that the first attempts to manage cattle in northern China predate the introduction of domestic cattle that gave rise to the current stock by several thousand years. Y1 - 2013 U6 - https://doi.org/10.1038/ncomms3755 SN - 2041-1723 VL - 4 IS - 6 PB - Nature Publ. Group CY - London ER -