Data from: Genome sequencing highlights the dynamic early history of dogs ...

• Main Authors: Freedman, Adam H., Gronau, Ilan, Schweizer, Rena M., Ortega-Del Vecchyo, Diego, Han, Eunjung, Silva, Pedro M., Galaverni, Marco, Fan, Zhenxin, Marx, Peter, Lorente-Galdos, Belen, Beale, Holly, Ramirez, Oscar, Hormozdiari, Farhad, Alkan, Can, Vilà, Carles, Squire, Kevin, Geffen, Eli, Kusak, Josip, Boyko, Adam R., Parker, Heidi G., Lee, Clarence, Tadigotla, Vasisht, Siepel, Adam, Bustamante, Carlos D., Harkins, Timothy T., Nelson, Stanley F., Ostrander, Elaine A., Marques-Bonet, Tomas, Wayne, Robert K., Novembre, John
• Format: Dataset
• Language: English
• Published: Dryad 2016
• Subjects: Canis lupus familiaris; dog domestication; Genome sequencing; Canis aureus; Canis lupus
• Online Access: https://dx.doi.org/10.5061/dryad.sk3p7; https://datadryad.org/stash/dataset/doi:10.5061/dryad.sk3p7

To identify genetic changes underlying dog domestication and reconstruct their early evolutionary history, we generated high-quality genome sequences from three gray wolves, one from each of the three putative centers of dog domestication, two basal dog lineages (Basenji and Dingo) and a golden jackal as an outgroup. Analysis of these sequences supports a demographic model in which dogs and wolves diverged through a dynamic process involving population bottlenecks in both lineages and post-divergence gene flow. In dogs, the domestication bottleneck involved at least a 16-fold reduction in population size, a much more severe bottleneck than estimated previously. A sharp bottleneck in wolves occurred soon after their divergence from dogs, implying that the pool of diversity from which dogs arose was substantially larger than represented by modern wolf populations. We narrow the plausible range for the date of initial dog domestication to an interval spanning 11–16 thousand years ago, predating the rise of ... : freedman_2014_plosgenetics_vcffilesIncluded in the tarball are merged vcf files, for individual autosomes, for the 6 canid genomes sequenced for and described in "Genome Sequencing Highlights the Dynamic Early History of Dogs", Freedman et al, PLoS Genetics 2014. Those are: Chinese wolf, Israeli wolf, Croatian wolf, Golden jackal, Dingo and Basenji.These files have been converted to boxer reference genome CanFam 3.1 coordinates (the original paper was in v. 3.0 coordinates). See Freedman et al. 2014 for a detailed description of filters. ...