N. Stepanova, ON THE LOWEST TEMPERATURES ON EARTH, Monthly Weather Review, vol.86, issue.1, pp.6-10, 1958.
DOI : 10.1175/1520-0493(1958)086<0006:OTLTOE>2.0.CO;2

B. Pakendorf, Investigating the effects of prehistoric migrations in Siberia: genetic variation and the origins of Yakuts, Human Genetics, vol.74, issue.3, pp.334-353, 2006.
DOI : 10.1007/s00439-006-0213-2

E. Crubézy, Human evolution in Siberia: from frozen bodies to ancient DNA, BMC Evolutionary Biology, vol.10, issue.1, p.25, 2010.
DOI : 10.1186/1471-2148-10-25

C. Keyser, The ancient Yakuts: a population genetic enigma, Philosophical Transactions of the Royal Society B: Biological Sciences, vol.26, issue.4, p.20130385, 1660.
DOI : 10.1002/ajpa.21003

URL : https://hal.archives-ouvertes.fr/lirmm-01170676

C. Ferret, Une civilization du cheval, Editions Belin, 2009.

N. Solomonov, A. Anufriev, V. Yadrikhinskii, and A. Isaev, Body temperature changes in purebred and hybrid Yakut horses under the conditions of Yakutia, Doklady Biological Sciences, vol.427, issue.1, pp.358-361, 2009.
DOI : 10.1134/S0012496609040164

N. Grigoreva and L. Koryakina, Dynamics of products of a metabolism glycoproteide and activity of enzymes AcAT, AAT at different type the Yakut breed of a horse, Doklady Rossiiskoi Akademii Sel'skokhozyaistvennykh Nauk, vol.3, pp.44-46, 2008.

G. Gabushev, Yakutian Horse, 1957.

W. Sieroszewski, S. Stepanov, M. Zhornitskaia, and S. Mukhamediarov, Yakuts: Experience Ethnographic Research (Association " Russian Encyclopedia, Moscow), 1993.

A. Alekseev, About the time of settlement of the Middle Vilyu. The Turkic World: Mongolia and Yakutia: Digest of Articles, pp.197-201, 2007.

P. Lazarev, Anthropogene Horses of Yakutia (Nauka, 1980.

C. Keyser-tracqui, Mitochondrial DNA analysis of horses recovered from a frozen tomb (Berel site, Kazakhstan, 3rd Century BC), Animal Genetics, vol.60, issue.3, pp.203-209, 2005.
DOI : 10.1111/j.1365-2052.2005.01316.x

URL : https://hal.archives-ouvertes.fr/hal-00154434

A. Mcgahern, Mitochondrial DNA sequence diversity in extant Irish horse populations and in ancient horses, Animal Genetics, vol.25, issue.5, pp.498-502, 2006.
DOI : 10.1016/0378-1119(94)90713-7

S. Lippold, N. Matzke, M. Reissmann, and M. Hofreiter, Whole mitochondrial genome sequencing of domestic horses reveals incorporation of extensive wild horse diversity during domestication, BMC Evolutionary Biology, vol.11, issue.1, p.328, 2011.
DOI : 10.1073/pnas.0903672106

C. Wade, Genome Sequence, Comparative Analysis, and Population Genetics of the Domestic Horse, Science, vol.326, issue.5954, pp.865-867, 2009.
DOI : 10.1126/science.1178158

URL : https://hal.archives-ouvertes.fr/hal-01193388

J. Pedersen, Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome, Genome Research, vol.24, issue.3, pp.454-466, 2014.
DOI : 10.1101/gr.163592.113

J. Enk, Ancient Whole Genome Enrichment Using Baits Built from Modern DNA, Molecular Biology and Evolution, vol.31, issue.5, pp.1292-1294, 2014.
DOI : 10.1093/molbev/msu074

M. Schubert, Prehistoric genomes reveal the genetic foundation and cost of horse domestication, Proceedings of the National Academy of Sciences, vol.111, issue.52, pp.5661-5669, 2014.
DOI : 10.1073/pnas.1416991111

I. Olalde, Derived immune and ancestral pigmentation alleles in a 7,000-year-old Mesolithic European, Nature, vol.507, issue.7491, pp.225-228, 2014.
DOI : 10.1101/gr.107524.110

M. Meyer and M. Kircher, Illumina Sequencing Library Preparation for Highly Multiplexed Target Capture and Sequencing, Cold Spring Harbor Protocols, vol.2010, issue.6, p.5448, 2010.
DOI : 10.1101/pdb.prot5448

B. Star, Palindromic Sequence Artifacts Generated during Next Generation Sequencing Library Preparation from Historic and Ancient DNA, PLoS ONE, vol.5, issue.3, p.89676, 2014.
DOI : 10.1371/journal.pone.0089676.s002

H. Jónsson, A. Ginolhac, M. Schubert, P. Johnson, and L. Orlando, mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters, Bioinformatics, vol.29, issue.13, pp.1682-1684, 2013.
DOI : 10.1093/bioinformatics/btt193

H. Goto, A Massively Parallel Sequencing Approach Uncovers Ancient Origins and High Genetic Variability of Endangered Przewalski's Horses, Genome Biology and Evolution, vol.3, issue.0, pp.1096-1106, 2011.
DOI : 10.1093/gbe/evr067

A. Achilli, Mitochondrial genomes from modern horses reveal the major haplogroups that underwent domestication, Proceedings of the National Academy of Sciences, vol.109, issue.7, pp.2449-2454, 2012.
DOI : 10.1073/pnas.1111637109

S. Xu, High Altitude Adaptation and Phylogenetic Analysis of Tibetan Horse Based on the Mitochondrial Genome, Journal of Genetics and Genomics, vol.34, issue.8, pp.720-729, 2007.
DOI : 10.1016/S1673-8527(07)60081-2

Q. Jiang, The complete mitochondrial genome and phylogenetic analysis of the Debao pony (Equus caballus), Molecular Biology Reports, vol.2, issue.2, pp.593-599, 2011.
DOI : 10.1007/s11033-010-0145-8

L. Orlando, Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse, Nature, vol.43, issue.7456, pp.74-78, 2013.
DOI : 10.1093/sysbio/syq010

S. Sawyer, J. Krause, K. Guschanski, V. Savolainen, and S. Pääbo, Temporal Patterns of Nucleotide Misincorporations and DNA Fragmentation in Ancient DNA, PLoS ONE, vol.25, issue.3, p.34131, 2012.
DOI : 10.1371/journal.pone.0034131.s002

G. Lindgren, Limited number of patrilines in horse domestication, Nature Genetics, vol.36, issue.4, pp.335-336, 2004.
DOI : 10.1038/ng1326

B. Wallner, Identification of Genetic Variation on the Horse Y Chromosome and the Tracing of Male Founder Lineages in Modern Breeds, PLoS ONE, vol.8, issue.1, p.60015, 2013.
DOI : 10.1371/journal.pone.0060015.s021

K. Do, Genomic characterization of the Przewalski??s horse inhabiting Mongolian steppe by whole genome re-sequencing, Livestock Science, vol.167, issue.0, pp.86-91, 2014.
DOI : 10.1016/j.livsci.2014.06.020

D. Sarkissian and C. , Evolutionary Genomics and Conservation of the Endangered Przewalski???s Horse, Current Biology, vol.25, issue.19, pp.2577-2583, 2015.
DOI : 10.1016/j.cub.2015.08.032

M. Yang, K. Harris, and M. Slatkin, The Projection of a Test Genome onto a Reference Population and Applications to Humans and Archaic Hominins, Genetics, vol.198, issue.4, pp.1655-1670, 2014.
DOI : 10.1534/genetics.112.145359

P. Clark, The Last Glacial Maximum, Science, vol.325, issue.5941, pp.710-714, 2009.
DOI : 10.1126/science.1172873

H. Li and R. Durbin, Inference of human population history from individual whole-genome sequences, Nature, vol.52, issue.7357, pp.493-496, 2011.
DOI : 10.1038/nature10231

N. Patterson, Ancient Admixture in Human History, Genetics, vol.192, issue.3, pp.1065-1093, 2012.
DOI : 10.1534/genetics.112.145037

E. Durand, N. Patterson, D. Reich, and M. Slatkin, Testing for Ancient Admixture between Closely Related Populations, Molecular Biology and Evolution, vol.28, issue.8, pp.2239-2252, 2011.
DOI : 10.1093/molbev/msr048

M. Nei, Molecular Evolutionary Genetics, 1987.

S. Carroll, Evolution at Two Levels: On Genes and Form, PLoS Biology, vol.21, issue.7, p.245, 2005.
DOI : 10.1371/journal.pbio.0030245.g003

S. Carroll, Evo-Devo and an Expanding Evolutionary Synthesis: A Genetic Theory of Morphological Evolution, Cell, vol.134, issue.1, pp.25-36, 2008.
DOI : 10.1016/j.cell.2008.06.030

H. Hoekstra and J. Coyne, THE LOCUS OF EVOLUTION: EVO DEVO AND THE GENETICS OF ADAPTATION, Evolution, vol.428, issue.1, pp.995-1016, 2007.
DOI : 10.1111/j.1558-5646.2007.00105.x

S. John, Epidermal Transglutaminase (TGase 3) Is Required for Proper Hair Development, but Not the Formation of the Epidermal Barrier, PLoS ONE, vol.13, issue.13, p.34252, 2012.
DOI : 10.1371/journal.pone.0034252.s003

R. Handa and M. Weiser, Gonadal steroid hormones and the hypothalamo???pituitary???adrenal axis, Frontiers in Neuroendocrinology, vol.35, issue.2, pp.197-220, 2014.
DOI : 10.1016/j.yfrne.2013.11.001

P. Laurberg, S. Andersen, and J. Karmisholt, Cold Adaptation and Thyroid Hormone Metabolism, Hormone and Metabolic Research, vol.37, issue.9, pp.545-549, 2005.
DOI : 10.1055/s-2005-870420

J. Dimicco and D. Zaretsky, The dorsomedial hypothalamus: a new player in thermoregulation, AJP: Regulatory, Integrative and Comparative Physiology, vol.292, issue.1, pp.47-63, 2007.
DOI : 10.1152/ajpregu.00498.2006

A. Little, T. Kunisue, K. Kannan, and F. Seebacher, Thyroid hormone actions are temperature-specific and regulate thermal acclimation in zebrafish (Danio rerio), BMC Biology, vol.11, issue.1, 2013.
DOI : 10.1002/gepi.0042

J. Silva, Thyroid Hormone Control of Thermogenesis and Energy Balance, Thyroid, vol.5, issue.6, pp.481-492, 1995.
DOI : 10.1089/thy.1995.5.481

D. Houser, L. Yeates, and D. Crocker, ), Journal of Zoo and Wildlife Medicine, vol.42, issue.4, pp.565-571, 2011.
DOI : 10.1638/2010-0121.1

S. Smith and W. Vale, The role of the hypothalamic-pituitary-adrenal axis in neuroendocrine responses to stress, Dialogues Clin Neurosci, vol.8, issue.4, pp.383-395, 2006.

J. Storey and K. Storey, Cold hardiness and freeze tolerance. Functional Metabolism, Storey KB, pp.473-503, 2004.

K. Prasad and T. , Human Protein Reference Database--2009 update, Nucleic Acids Research, vol.37, issue.Database, pp.767-772, 2009.
DOI : 10.1093/nar/gkn892

N. Flavahan, The role of vascular alpha-2-adrenoceptors as cutaneous thermosensors, Physiology (Bethesda), vol.6, issue.6, pp.251-255, 1991.

G. Thompson, Physiological effects of cold exposure, Int Rev Physiol, vol.15, pp.29-69, 1977.

S. Yamagoe, Y. Kameoka, K. Hashimoto, S. Mizuno, and K. Suzuki, Molecular Cloning, Structural Characterization, and Chromosomal Mapping of the Human LECT2 Gene, Genomics, vol.48, issue.3, pp.324-329, 1998.
DOI : 10.1006/geno.1997.5198

A. Hirano, FBXL21 Regulates Oscillation of the Circadian Clock through Ubiquitination and Stabilization of Cryptochromes, Cell, vol.152, issue.5, pp.1106-1118, 2013.
DOI : 10.1016/j.cell.2013.01.054

V. Lynch, Elephantid Genomes Reveal the Molecular Bases of Woolly Mammoth Adaptations to the Arctic, Cell Reports, vol.12, issue.2, pp.217-228, 2015.
DOI : 10.1016/j.celrep.2015.06.027

A. Cardona, Genome-Wide Analysis of Cold Adaptation in Indigenous Siberian Populations, PLoS ONE, vol.46, issue.5, p.98076, 2014.
DOI : 10.1371/journal.pone.0098076.s002

A. Seguin-orlando, Ligation Bias in Illumina Next-Generation DNA Libraries: Implications for Sequencing Ancient Genomes, PLoS ONE, vol.108, issue.10, p.78575, 2013.
DOI : 10.1371/journal.pone.0078575.s010

D. Sarkissian and C. , Shotgun microbial profiling of fossil remains, Molecular Ecology, vol.8, issue.7, pp.1780-1798, 2014.
DOI : 10.1111/mec.12690

M. Schubert, Characterization of ancient and modern genomes by SNP detection and phylogenomic and metagenomic analysis using PALEOMIX, Nature Protocols, vol.486, issue.5, pp.1056-1082, 2014.
DOI : 10.1093/nar/gkp1137

A. Nedoluzhko, Analysis of the Mitochondrial Genome of a Novosvobodnaya Culture Representative using Next-Generation Sequencing and Its Relation to the Funnel Beaker Culture, Acta Naturae, vol.6, issue.2, pp.31-35, 2014.

X. Xu and U. Arnason, The complete mitochondrial DNA sequence of the horse, Equus caballus: Extensive heteroplasmy of the control region, Gene, vol.148, issue.2, pp.357-362, 1994.

T. Keane, C. Creevey, M. Pentony, T. Naughton, and J. Mclnerney, Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified, BMC Evolutionary Biology, vol.6, issue.1, p.29, 2006.
DOI : 10.1186/1471-2148-6-29

S. Guindon, New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0, Systematic Biology, vol.59, issue.3, pp.307-321, 2010.
DOI : 10.1093/sysbio/syq010

URL : https://hal.archives-ouvertes.fr/lirmm-00511784

A. Drummond, M. Suchard, D. Xie, and A. Rambaut, Bayesian Phylogenetics with BEAUti and the BEAST 1.7, Molecular Biology and Evolution, vol.29, issue.8, pp.1969-1973, 2012.
DOI : 10.1093/molbev/mss075

P. Flicek, Ensembl 2013, Database issue, D1), pp.48-55, 2013.
DOI : 10.1093/nar/gks1236

URL : http://doi.org/10.1093/nar/gks1236

A. Price, Principal components analysis corrects for stratification in genome-wide association studies, Nature Genetics, vol.15, issue.8, pp.904-909, 2006.
DOI : 10.1038/ng1653

M. Fumagalli, Quantifying Population Genetic Differentiation from Next-Generation Sequencing Data, Genetics, vol.195, issue.3, pp.979-992, 2013.
DOI : 10.1534/genetics.113.154740

M. Fumagalli, F. Vieira, T. Linderoth, and R. Nielsen, ngsTools: methods for population genetics analyses from next-generation sequencing data, Bioinformatics, vol.30, issue.10, pp.1486-1487, 2014.
DOI : 10.1093/bioinformatics/btu041

R. Gutenkunst, R. Hernandez, S. Williamson, and C. Bustamante, Inferring the Joint Demographic History of Multiple Populations from Multidimensional SNP Frequency Data, PLoS Genetics, vol.81, issue.10, p.1000695, 2009.
DOI : 10.1371/journal.pgen.1000695.s001

L. Skotte, T. Korneliussen, and A. Albrechtsen, Estimating Individual Admixture Proportions from Next Generation Sequencing Data, Genetics, vol.195, issue.3, pp.693-702, 2013.
DOI : 10.1534/genetics.113.154138

R. Green, A Draft Sequence of the Neandertal Genome, Science, vol.328, issue.5979, pp.710-722, 2010.
DOI : 10.1126/science.1188021

URL : https://hal.archives-ouvertes.fr/hal-00920381

J. Pickrell and J. Pritchard, Inference of Population Splits and Mixtures from Genome-Wide Allele Frequency Data, PLoS Genetics, vol.26, issue.11, p.1002967, 2012.
DOI : 10.1371/journal.pgen.1002967.s016

H. Jónsson, Speciation with gene flow in equids despite extensive chromosomal plasticity, Proceedings of the National Academy of Sciences, vol.111, issue.52, pp.18655-18660, 2014.
DOI : 10.1073/pnas.1412627111

C. Alkan, Personalized copy number and segmental duplication maps using next-generation sequencing, Nature Genetics, vol.247, issue.10, pp.1061-1067, 2009.
DOI : 10.1038/ng.437

T. Baye, H. Tiwari, D. Allison, and R. Go, Database mining for selection of SNP markers useful in admixture mapping, BioData Mining, vol.7, issue.3, p.1, 2009.
DOI : 10.1093/bib/bbl021

S. Wright, THE GENETICAL STRUCTURE OF POPULATIONS, Annals of Eugenics, vol.31, issue.111, pp.323-354, 1951.
DOI : 10.1111/j.1469-1809.1949.tb02451.x

T. Korneliussen, A. Albrechtsen, and R. Nielsen, ANGSD: Analysis of Next Generation Sequencing Data, BMC Bioinformatics, vol.449, issue.7164, p.356, 2014.
DOI : 10.1186/s12859-014-0356-4

B. Zhang, S. Kirov, and J. Snoddy, WebGestalt: an integrated system for exploring gene sets in various biological contexts, Nucleic Acids Research, vol.33, issue.Web Server, pp.741-748, 2005.
DOI : 10.1093/nar/gki475