UBC Research Data

Data from: The evolutionary history of dogs in the Americas Leathlobhair, Máire Ní; Perri, Angela R.; Irving-Pease, Evan K.; Witt, Kelsey E.; Linderholm, Anna; Haile, James; Lebrasseur, Ophelie; Ameen, Carly; Blick, Jeffrey; Boyko, Adam R.; Brace, Selina; Nunes Cortes, Yahaira; Crockford, Susan J.; Devault, Alison; Dimopoulos, Evangelos A.; Eldridge, Morley; Enk, Jacob; Gopalakrishnan, Shyam; Gori, Kevin; Grimes, Vaughan; Guiry, Eric; Hansen, Anders J.; Hulme-Beaman, Ardern; Johnson, John; Kitchen, Andrew; Kasparov, Aleksei K.; Kwon, Young-Mi; Nikolskiy, Pavel A.; Peraza Lope, Carlos; Manin, Aurélie; Martin, Terrance; Meyer, Michael; Noack Myers, Kelsey; Omura, Mark; Rouillard, Jean-Marie; Pavlova, Elena Y.; Sciulli, Paul; Mikkel-Holger, Sinding S.; Strakova, Andrea; Ivanova, Varvara V.; Widga, Christopher; Willerslev, Eske; Pitulko, Vladimir V.; Barnes, Ian; Gilbert, M. Thomas P.; Dobney, Keith M.; Malhi, Ripan S.; Murchison, Elizabeth P.; Larson, Greger; Frantz, Laurent A. F.

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Abstract
Dogs were present in the Americas prior to the arrival of European colonists, but the origin and fate of these pre-contact dogs are largely unknown. We sequenced 71 mitochondrial and seven nuclear genomes from ancient North American and Siberian dogs spanning ~9,000 years. Our analysis indicates that American dogs were not domesticated from North American wolves. Instead, American dogs form a monophyletic lineage that likely originated in Siberia and dispersed into the Americas alongside people. After the arrival of Europeans, native American dogs almost completely disappeared, leaving a minimal genetic legacy in modern dog populations. Remarkably, the closest detectable extant lineage to pre-contact American dogs is the canine transmissible venereal tumor, a contagious cancer clone derived from an individual dog that lived up to 8,000 years ago.; Usage notes
Mitochondrial DNA FASTA fileFASTA file containing 1166 dog mtDNA genomes used in this studyfull_mtDNA_alignment.fasta
NEXUS treeMaximum likelihood tree (RAxML) of 1166 dogs mtDNA genomes used in this studyfull_mtDNA_alignment.tre
Excel sheetPublication source of the 1166 mtDNA genomes used in this studyfull_mtDNA_alignment.xlsx
Plink (bed) fileContains genotype for dogs 54 dogsfull_data.bed
Plink file (bim)Contains genotype for 54 dogsfull_data.bim
Plink file (fam)Contains genotype for 54 dogsfull_data.fam
NJ tree in Figure 2bNJ tree in Figure 2b (see Table S2 for more info)Figure_b.tre
Nexus fileNexus file used for producing Figure S12 (MKV model in MrBayes)Binary_char_MKV.nex
NEXUS treeBayesian tree in Figure S12 (see Table S2 for more info)Figure_S12.tre

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