Palaeolithic dog skulls at the Gravettian P??edmost?? site, the Czech Republic, Journal of Archaeological Science, vol.39, issue.1, pp.184-202, 2012. ,
DOI : 10.1016/j.jas.2011.09.022
New evidence for Upper Palaeolithic small domestic dogs in South-Western Europe, Journal of Archaeological Science, vol.38, issue.9, pp.2123-2140, 2011. ,
DOI : 10.1016/j.jas.2011.02.028
Early Domesticated Dogs of the Near East, Journal of Archaeological Science, vol.21, issue.5, pp.633-640, 1994. ,
DOI : 10.1006/jasc.1994.1062
Evidence of Coat Color Variation Sheds New Light on Ancient Canids, PLoS ONE, vol.27, issue.2, p.75110, 2013. ,
DOI : 10.1371/journal.pone.0075110.s005
URL : https://hal.archives-ouvertes.fr/hal-00914004
Genome Sequencing Highlights the Dynamic Early History of Dogs, PLoS Genetics, vol.15, issue.1, p.1004016, 2014. ,
DOI : 10.1371/journal.pgen.1004016.s030
Complete Mitochondrial Genomes of Ancient Canids Suggest a European Origin of Domestic Dogs, Science, vol.342, issue.6160, pp.871-875, 2013. ,
DOI : 10.1126/science.1243650
Genetic structure in village dogs reveals a Central Asian domestication origin, Proceedings of the National Academy of Sciences, vol.112, issue.44, pp.13639-13644, 2015. ,
DOI : 10.1073/pnas.1516215112
Out of southern East Asia: the natural history of domestic dogs across the world, Cell Research, vol.20, issue.1, pp.21-33, 2015. ,
DOI : 10.1038/cr.2015.147
Population genomics of Bronze Age Eurasia, Nature, vol.81, issue.7555, pp.167-172, 2015. ,
DOI : 10.1038/nature14507
Massive migration from the steppe was a source for Indo-European languages in Europe, Nature, vol.40, issue.7555, pp.207-211, 2015. ,
DOI : 10.1038/nature14317
Dogs: The Ultimate Dictionary of Over 1,000 Dog Breeds (Trafalgar Square, 2008. ,
Inferring human population size and separation history from multiple genome sequences, Nature Genetics, vol.156, issue.8, pp.919-944, 2014. ,
DOI : 10.1109/5.18626
Inference of human population history from individual whole-genome sequences, Nature, vol.52, issue.7357, pp.493-499, 2011. ,
DOI : 10.1038/nature10231
On the origin of mongrels: evolutionary history of free-breeding dogs in Eurasia, Proceedings of the Royal Society B: Biological Sciences, vol.282, issue.1820, pp.20152189-2015 ,
DOI : 10.1111/j.1365-294X.2012.05614.x
Ancient Wolf Genome Reveals an Early Divergence of Domestic Dog Ancestors and Admixture into High-Latitude Breeds, Current Biology, vol.25, issue.11, pp.1515-1519, 2015. ,
DOI : 10.1016/j.cub.2015.04.019
The genomics of selection in dogs and the parallel evolution between dogs and humans, Nature Communications, vol.4, p.1860, 2013. ,
DOI : 10.1038/ncomms2814
Genetic Evidence for an East Asian Origin of Domestic Dogs, Science, vol.298, issue.5598, pp.1610-1613, 2002. ,
DOI : 10.1126/science.1073906
A population genetics view of animal domestication, Trends in Genetics, vol.29, issue.4, pp.197-205, 2013. ,
DOI : 10.1016/j.tig.2013.01.003
Evidence of long-term gene flow and selection during domestication from analyses of Eurasian wild and domestic pig genomes, Nature Genetics, vol.21, issue.10, pp.1141-1148, 2015. ,
DOI : 10.1101/gr.083634.108
Ireland: The Late Neolithic/Beaker Period Settlement, 1983. ,
The Holocene History of the European Vertebrate Fauna: Modem Aspects of Research, 1998. ,
Genetic Analyses from Ancient DNA, Annual Review of Genetics, vol.38, issue.1, pp.645-679, 2004. ,
DOI : 10.1146/annurev.genet.37.110801.143214
True single-molecule DNA sequencing of a pleistocene horse bone, Genome Research, vol.21, issue.10, pp.1705-1724, 2011. ,
DOI : 10.1101/gr.122747.111
Mitochondrial Phylogenomics of Modern and Ancient Equids, PLoS ONE, vol.107, issue.2, p.55950, 2013. ,
DOI : 10.1371/journal.pone.0055950.s012
Fast and accurate short read alignment with Burrows-Wheeler transform, Bioinformatics, vol.25, issue.14, pp.1754-60, 2009. ,
DOI : 10.1093/bioinformatics/btp324
Genome sequence, comparative analysis and haplotype structure of the domestic dog, Nature, vol.426, issue.7069, pp.803-822, 2005. ,
DOI : 10.1038/nature04338
Characterization of ancient and modern genomes by SNP detection and phylogenomic and metagenomic analysis using PALEOMIX, Nature Protocols, vol.486, issue.5, pp.1056-82, 2014. ,
DOI : 10.1093/nar/gkp1137
The Sequence Alignment/Map format and SAMtools, Bioinformatics, vol.25, issue.16, pp.2078-2087, 2009. ,
DOI : 10.1093/bioinformatics/btp352
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data, Genome Research, vol.20, issue.9, pp.1297-1303, 2010. ,
DOI : 10.1101/gr.107524.110
mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters, Bioinformatics, vol.29, issue.13, pp.1682-1686, 2013. ,
DOI : 10.1093/bioinformatics/btt193
DoGSD: the dog and wolf genome SNP database, Nucleic Acids Research, vol.43, issue.D1, pp.777-83, 2014. ,
DOI : 10.1093/nar/gku1174
A Fine-Scale Chimpanzee Genetic Map from Population Sequencing, Science, vol.336, issue.6078, pp.193-201, 2012. ,
DOI : 10.1126/science.1216872
BEDTools: a flexible suite of utilities for comparing genomic features, Bioinformatics, vol.26, issue.6, pp.841-843, 2010. ,
DOI : 10.1093/bioinformatics/btq033
Characterizing Bias in Population Genetic Inferences from Low-Coverage Sequencing Data, Molecular Biology and Evolution, vol.31, issue.3, pp.723-758, 2014. ,
DOI : 10.1093/molbev/mst229
Identification of Genomic Regions Associated with Phenotypic Variation between Dog Breeds using Selection Mapping, PLoS Genetics, vol.33, issue.10, p.1002316, 2011. ,
DOI : 10.1371/journal.pgen.1002316.s019
URL : https://hal.archives-ouvertes.fr/inserm-00638834
The UCSC Genome Browser database: 2016 update, Nucleic Acids Research, vol.44, issue.D1, pp.717-742, 2016. ,
DOI : 10.1093/nar/gkv1275
PLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses, The American Journal of Human Genetics, vol.81, issue.3, pp.559-75, 2007. ,
DOI : 10.1086/519795
APE: Analyses of Phylogenetics and Evolution in R language, Bioinformatics, vol.20, issue.2, pp.289-290, 2004. ,
DOI : 10.1093/bioinformatics/btg412
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
Ancient Admixture in Human History, Genetics, vol.192, issue.3, pp.1065-93, 2012. ,
DOI : 10.1534/genetics.112.145037
Rapid and Accurate Haplotype Phasing and Missing-Data Inference for Whole-Genome Association Studies By Use of Localized Haplotype Clustering, The American Journal of Human Genetics, vol.81, issue.5, pp.1084-97, 2007. ,
DOI : 10.1086/521987
Worldwide patterns of genomic variation and admixture in gray wolves, Genome Research, vol.26, issue.2, pp.163-73, 2016. ,
DOI : 10.1101/gr.197517.115
Forensic informativity of domestic dog mtDNA control region sequences, Forensic Science International, vol.154, issue.2-3, pp.99-110, 2005. ,
DOI : 10.1016/j.forsciint.2004.09.132
Comprehensive study of mtDNA among Southwest Asian dogs contradicts independent domestication of wolf, but implies dog-wolf hybridization, Ecology and Evolution, vol.105, issue.3, pp.373-85, 2011. ,
DOI : 10.1002/ece3.35
Complex population structure in African village dogs and its implications for inferring dog domestication history, Proceedings of the National Academy of Sciences, vol.106, issue.33, pp.13903-13911, 2009. ,
DOI : 10.1073/pnas.0902129106
Phylogenetic Distinctiveness of Middle Eastern and Southeast Asian Village Dog Y Chromosomes Illuminates Dog Origins, PLoS ONE, vol.463, issue.12, p.28496, 2011. ,
DOI : 10.1371/journal.pone.0028496.s012
Vanishing native American dog lineages, BMC Evolutionary Biology, vol.21, issue.Suppl 3, p.73, 2011. ,
DOI : 10.1093/bioinformatics/bti154
The genetic legacy of extirpation and re-colonization in Vancouver Island wolves, Conservation Genetics, vol.105, issue.2, pp.547-556, 2009. ,
DOI : 10.1007/s10592-009-9974-1
Intra- and interbreed genetic variations of mitochondrial DNA major non-coding regions in Japanese native dog breeds [Canis familiaris), Animal Genetics, vol.5, issue.supplement, pp.397-405, 2009. ,
DOI : 10.1111/j.1365-2052.1996.tb00506.x
Mitochondrial DNA data indicate an introduction through Mainland Southeast Asia for Australian dingoes and Polynesian domestic dogs, Proceedings of the Royal Society B: Biological Sciences, vol.68, issue.5, pp.967-74, 2012. ,
DOI : 10.1111/j.1399-0039.2006.00696.x
mtDNA Data Indicate a Single Origin for Dogs South of Yangtze River, Less Than 16,300 Years Ago, from Numerous Wolves, Molecular Biology and Evolution, vol.26, issue.12, pp.2849-64, 2009. ,
DOI : 10.1093/molbev/msp195
A detailed picture of the origin of the Australian dingo, obtained from the study of mitochondrial DNA, Proceedings of the National Academy of Sciences, vol.101, issue.33, pp.12387-90, 2004. ,
DOI : 10.1073/pnas.0401814101
Extensive interbreeding occurred among multiple matriarchal ancestors during the domestication of dogs: Evidence from inter- and intraspecies polymorphisms in the D-loop region of mitochondrial DNA between dogs and wolves., Genes & Genetic Systems, vol.72, issue.4, pp.229-267, 1997. ,
DOI : 10.1266/ggs.72.229
Ancient DNA Evidence for Old World Origin of New World Dogs, Science, vol.298, issue.5598, pp.1613-1619, 2002. ,
DOI : 10.1126/science.1076980
Ancient DNA supports lineage replacement in European dog gene pool: insight into Neolithic southeast France, Journal of Archaeological Science, vol.36, issue.2, pp.513-519, 2009. ,
DOI : 10.1016/j.jas.2008.10.011
URL : https://hal.archives-ouvertes.fr/halshs-00458905
Mitochondrial DNA from Prehistoric Canids Highlights Relationships Between Dogs and South-East European Wolves, Molecular Biology and Evolution, vol.22, issue.12, pp.2541-51, 2005. ,
DOI : 10.1093/molbev/msi248
Ancient DNA extraction from bones and teeth, Nature Protocols, vol.6, issue.7, pp.1756-62, 2007. ,
DOI : 10.1038/nprot.2007.247
Ancient DNA: Do It Right or Not at All, Science, vol.289, issue.5482, pp.1139-1139, 2000. ,
DOI : 10.1126/science.289.5482.1139b
Assessing ancient DNA studies, Trends in Ecology & Evolution, vol.20, issue.10, pp.541-545, 2005. ,
DOI : 10.1016/j.tree.2005.07.005
The Complete Nucleotide Sequence of the Domestic Dog (Canis familiaris) Mitochondrial Genome, Molecular Phylogenetics and Evolution, vol.10, issue.2, pp.210-230, 1998. ,
DOI : 10.1006/mpev.1998.0513
DomeTree: a canonical toolkit for mitochondrial DNA analyses in domesticated animals, Molecular Ecology Resources, vol.4, issue.5, pp.1238-1280, 2015. ,
DOI : 10.1111/1755-0998.12386
MUSCLE: multiple sequence alignment with high accuracy and high throughput, Nucleic Acids Research, vol.32, issue.5, pp.1792-1799, 2004. ,
DOI : 10.1093/nar/gkh340
Generating samples under a Wright-Fisher neutral model of genetic variation, Bioinformatics, vol.18, issue.2, pp.337-338, 2002. ,
DOI : 10.1093/bioinformatics/18.2.337
Fast and flexible simulation of DNA sequence data, Genome Research, vol.19, issue.1, pp.136-178, 2009. ,
DOI : 10.1101/gr.083634.108
Fast model-based estimation of ancestry in unrelated individuals, Genome Research, vol.19, issue.9, pp.1655-64, 2009. ,
DOI : 10.1101/gr.094052.109
Burying Dogs in Ancient Cis-Baikal, Siberia: Temporal Trends and Relationships with Human Diet and Subsistence Practices, PLoS ONE, vol.19, issue.1, p.63740, 2013. ,
DOI : 10.1371/journal.pone.0063740.s001
Studies on early dog remains from Northern Europe, Journal of Archaeological Science, vol.14, issue.1, pp.31-49, 1987. ,
DOI : 10.1016/S0305-4403(87)80004-3
Fossil dogs and wolves from Palaeolithic sites in Belgium, the Ukraine and Russia: osteometry, ancient DNA and stable isotopes, Journal of Archaeological Science, vol.36, issue.2, pp.473-490, 2009. ,
DOI : 10.1016/j.jas.2008.09.033
Ritual or Structure? Analysis of Burial Elaboration at Dadianzi, Inner Mongolia, Journal of East Asian Archaeology, vol.3, issue.3, pp.23-51, 2001. ,
DOI : 10.1163/156852301760238265
Agricultural origins and the isotopic identity of domestication in northern China, Proceedings of the National Academy of Sciences, vol.106, issue.14, pp.5523-5531, 2009. ,
DOI : 10.1073/pnas.0809960106
Dushanbe: Institute of History, Archaeology, and Ethnography. Dushanbe, Tajikistan: Academy of Sciences of Tajikistan A. Donish History, Archaeology and Ethnographic Institute, 2008. ,
From sheep to (some) horses: 4500 years of herd structure at the pastoralist settlement of Begash (south-eastern Kazakhstan), Antiquity, vol.3, issue.322, pp.1023-1037, 2015. ,
DOI : 10.1126/science.1168594
Iron Age society and chronology in South-east Kazakhstan, Antiquity, vol.74, issue.296, pp.298-312, 2003. ,
DOI : 10.1017/S0003598X00085781
A bioarchaeological investigation of three late Chalcolithic pits at Ov??ular Tepesi (Nakhchivan, Azerbaijan), Environmental Archaeology, vol.42, issue.3, pp.191-200, 2013. ,
DOI : 10.1179/0093469011Z.0000000002
From hunters to breeders: faunal background of early India, 1988. ,
Animal remains from Lothal excavations (Zoological Survey of India, 1962. ,
in Early Animal Domestication and Its Cultural Context, P, 1989. ,
redno-Stogivska kultura epokhi midi, 1973. ,
Areni-1 Cave, Armenia: A Chalcolithic???Early Bronze Age settlement and ritual site in the southern Caucasus, Journal of Field Archaeology, vol.129, issue.1, pp.20-33, 2013. ,
DOI : 10.1007/978-0-306-48246-5_2
Eurasian pastoralists and their shifting regional interactions at the steppe margin: settlement history at Mukri, Kazakhstan, World Archaeology, vol.83, issue.2, pp.622-646, 2010. ,
DOI : 10.4324/9780203202913_chapter_9
The mesolithic and neolithic in the southern Urals and central Asia, 1986. ,
A 33,000-Year-Old Incipient Dog from the Altai Mountains of Siberia: Evidence of the Earliest Domestication Disrupted by the Last Glacial Maximum, PLoS ONE, vol.269, issue.7, p.22821, 2011. ,
DOI : 10.1371/journal.pone.0022821.s007
The Earliest Ice Age Dogs: Evidence from Eliseevichi 1, Current Anthropology, vol.43, issue.5, pp.795-799, 2002. ,
DOI : 10.1086/344372
A wolf in dog's clothing: Initial dog domestication and Pleistocene wolf variation, Journal of Archaeological Science, vol.68, pp.1-4, 2016. ,
DOI : 10.1016/j.jas.2016.02.003
Comments on Germonpr?? et??al., Journal of Archaeological Science 36, 2009 ???Fossil dogs and wolves from Palaeolithic sites in Belgium, the Ukraine and Russia: osteometry, ancient DNA and stable isotopes???, and Germonpr??, L??zki??kov??-Galetov??, and Sablin, Journal of Archaeological Science 39, 2012 ???Palaeolithic dog skulls at the Gravettian P??edmost?? site, the Czech Republic???, Journal of Archaeological Science, vol.39, issue.8, pp.2797-2801, 2012. ,
DOI : 10.1016/j.jas.2012.04.033
A biometric re-evaluation of recent claims for Early Upper Palaeolithic wolf domestication in Eurasia, Journal of Archaeological Science, vol.45, pp.80-89, 2014. ,
DOI : 10.1016/j.jas.2014.02.006
URL : https://hal.archives-ouvertes.fr/halshs-01015581
3D morphometric analysis of fossil canid skulls contradicts the suggested domestication of dogs during the late Paleolithic, Scientific Reports, vol.10, issue.38, p.8299, 2015. ,
DOI : 10.1038/srep08299
The genomic signature of dog domestication reveals adaptation to a starch-rich diet, Nature, vol.21, issue.7441, pp.360-364, 2013. ,
DOI : 10.1038/nature11837
Coat Variation in the Domestic Dog Is Governed by Variants in Three Genes, Science, vol.326, issue.5949, pp.150-153, 2009. ,
DOI : 10.1126/science.1177808
URL : https://hal.archives-ouvertes.fr/inserm-00412221
An Expressed Fgf4 Retrogene Is Associated with Breed-Defining Chondrodysplasia in Domestic Dogs, Science, vol.325, issue.5943, pp.995-1003, 2009. ,
DOI : 10.1126/science.1173275