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Genomic Analyses Reveal the Influence of Geographic Origin, Migration, and Hybridization on Modern Dog Breed Development
Open accessAbstract
There are nearly 400 modern domestic dog breeds with a unique histories and genetic profiles. To track the genetic signatures of breed development, we have assembled the most diverse dataset of dog breeds, reflecting their extensive phenotypic variation and heritage. Combining genetic distance, migration, and genome-wide haplotype sharing analyses, we uncover geographic patterns of development and independent origins of common traits. Our analyses reveal the hybrid history of breeds and elucidate the effects of immigration, revealing for the first time a suggestion of New World dog within some modern breeds. Finally, we used cladistics and haplotype sharing to show that some common traits have arisen more than once in the history of the dog. These analyses characterize the complexities of breed development, resolving longstanding questions regarding individual breed origination, the effect of migration on geographically distinct breeds, and, by inference, transfer of trait and disease alleles among dog breeds.
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Cites
PLINK: a tool set for whole-genome association and population-based linkage analyses.
Purcell, S., Neale, B., Todd-Brown, K., Thomas, L., Ferreira, M. A. R., Bender, D., Maller, J., Sklar, P., de Bakker, P. I. W., Daly, M. J., et al. (2007) · The American Journal of Human Genetics · doi:10.1086/519795 · Cited by 34,089
Circos: An information aesthetic for comparative genomics
Krzywinski, M., Schein, J., Birol, İ., Connors, J., Gascoyne, R., Horsman, D., Jones, S. J., & Marra, M. A. (2009) · Genome Research · doi:10.1101/gr.092759.109 · Cited by 10,964
Ancient Admixture in Human History
Patterson, N., Moorjani, P., Luo, Y., Mallick, S., Rohland, N., Zhan, Y., Genschoreck, T., Webster, T., & Reich, D. (2012) · Genetics · doi:10.1534/genetics.112.145037 · Cited by 2,848
Inference of population splits and mixtures from genome-wide allele frequency data
Pickrell, J. K., & Pritchard, J. K. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1002967 · Cited by 2,731
Genome sequence, comparative analysis and haplotype structure of the domestic dog
members, B. S. P., Lindblad-Toh, K., Wade, C. M., Mikkelsen, T. S., Karlsson, E. K., Jaffe, D. B., Kamal, M., Clamp, M., Chang, J. L., Kulbokas, E. J., et al. (2005) · Nature · doi:10.1038/nature04338 · Cited by 2,568
Self-citationMultiple and Ancient Origins of the Domestic Dog
Vilà, C., Savolainen, P., Maldonado, J. E., Amorim, I. R., Rice, J. E., Honeycutt, R. L., Crandall, K. A., Lundeberg, J., & Wayne, R. K. (1997) · Science · doi:10.1126/science.276.5319.1687 · Cited by 1,091
Polymorphic DNA region adjacent to the 5' end of the human insulin gene.
Bell, G. I., Karam, J. H., & Rutter, W. J. (1981) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.78.9.5759 · Cited by 889
Genome-wide SNP and haplotype analyses reveal a rich history underlying dog domestication
vonHoldt, B. M., Pollinger, J. P., Lohmueller, K. E., Han, E., Parker, H. G., Quignon, P., Degenhardt, J. D., Boyko, A. R., Earl, D. A., Auton, A., et al. (2010) · Nature · doi:10.1038/nature08837 · Cited by 807
Self-citationGenetic Structure of the Purebred Domestic Dog
Parker, H. G., Kim, L. V., Sutter, N. B., Carlson, S., Lorentzen, T. D., Malek, T. B., Johnson, G. S., DeFrance, H. B., Ostrander, E. A., & Kruglyak, L. (2004) · Science · doi:10.1126/science.1097406 · Cited by 735
Self-citationA Single IGF1 Allele Is a Major Determinant of Small Size in Dogs
Sutter, N. B., Bustamante, C. D., Chase, K., Gray, M. M., Zhao, K., Zhu, L., Padhukasahasram, B., Karlins, E., Davis, S., Jones, P. G., et al. (2007) · Science · doi:10.1126/science.1137045 · Cited by 669
Self-citationImproving the Accuracy and Efficiency of Identity-by-Descent Detection in Population Data
Browning, B. L., & Browning, S. R. (2013) · Genetics · doi:10.1534/genetics.113.150029 · Cited by 657
Complete Mitochondrial Genomes of Ancient Canids Suggest a European Origin of Domestic Dogs
Thalmann, O., Shapiro, B., Cui, P., Schuenemann, V. J., Sawyer, S. K., Greenfield, D. L., Germonpré, M. B., Sablin, M. V., López-Giráldez, F., Domingo-Roura, X., et al. (2013) · Science · doi:10.1126/science.1243650 · Cited by 525
Ancient DNA Evidence for Old World Origin of New World Dogs
Leonard, J. A., Wayne, R. K., Wheeler, J., Valadez, R., Guillén, S., & Vilà, C. (2002) · Science · doi:10.1126/science.1076980 · Cited by 445
Ruiz-Linares, A., Adhikari, K., Acuña-Alonzo, V., Quinto-Sanchez, M., Jaramillo, C., Arias, W., Fuentes, M., Pizarro, M., Everardo, P., de Avila, F., et al. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004572 · Cited by 442 · cited 2×
“…may retain the aboriginal NewWorld dog genomic signatures intermixed with the European breed haplotypes, similar to the admixture among European, African, and Native American genomes that can be found inmodern South American human populations (Mathias et al., 2016; Ruiz-Linares et al., 2014).”
BackgroundSNP ascertainment bias in population genetic analyses: Why it is important, and how to correct it
Lachance, J., & Tishkoff, S. A. (2013) · BioEssays · doi:10.1002/bies.201300014 · Cited by 398
Vaysse, A., Ratnakumar, A., Derrien, T., Axelsson, E., Rosengren Pielberg, G., Sigurdsson, S., Fall, T., Seppälä, E. H., Hansen, M. S. T., Lawley, C. T., et al. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1002316 · Cited by 393
Pang, J.-F., Kluetsch, C., Zou, X.-J., Zhang, A.-B., Luo, L.-Y., Angleby, H., Ardalan, A., Ekstrom, C., Skollermo, A., Lundeberg, J., et al. (2009) · Molecular Biology and Evolution · doi:10.1093/molbev/msp195 · Cited by 392
Out of southern East Asia: the natural history of domestic dogs across the world
Wang, G.-D., Zhai, W., Yang, H.-C., Wang, L., Zhong, L., Liu, Y.-H., Fan, R.-X., Yin, T.-T., Zhu, C.-L., Poyarkov, A. D., et al. (2016) · Cell Research · doi:10.1038/cr.2015.147 · Cited by 351
An Expressed Fgf4 Retrogene Is Associated with Breed-Defining Chondrodysplasia in Domestic Dogs
Parker, H. G., VonHoldt, B. M., Quignon, P., Margulies, E. H., Shao, S., Mosher, D. S., Spady, T. C., Elkahloun, A., Cargill, M., Jones, P. G., et al. (2009) · Science · doi:10.1126/science.1173275 · Cited by 342
Self-citationCoat Variation in the Domestic Dog Is Governed by Variants in Three Genes
Cadieu, E., Neff, M. W., Quignon, P., Walsh, K., Chase, K., Parker, H. G., VonHoldt, B. M., Rhue, A., Boyko, A., Byers, A., et al. (2009) · Science · doi:10.1126/science.1177808 · Cited by 341
Self-citationExtensive and breed-specific linkage disequilibrium in Canis familiaris
Sutter, N. B., Eberle, M. A., Parker, H. G., Pullar, B. J., Kirkness, E. F., Kruglyak, L., & Ostrander, E. A. (2004) · Genome Research · doi:10.1101/gr.3147604 · Cited by 303
Self-citationComplex disease and phenotype mapping in the domestic dog
Hayward, J. J., Castelhano, M. G., Oliveira, K. C., Corey, E., Balkman, C., Baxter, T. L., Casal, M. L., Center, S. A., Fang, M., Garrison, S. J., et al. (2016) · Nature Communications · doi:10.1038/ncomms10460 · Cited by 271
Genetic structure in village dogs reveals a Central Asian domestication origin
Shannon, L. M., Boyko, R. H., Castelhano, M., Corey, E., Hayward, J. J., McLean, C., White, M. E., Abi Said, M., Anita, B. A., Bondjengo, N. I., et al. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1516215112 · Cited by 226
Phylogenetic relationships, evolution, and genetic diversity of the domestic dog
Vila, C. (1999) · Journal of Heredity · doi:10.1093/jhered/90.1.71 · Cited by 225
The Great Migration and African-American Genomic Diversity
Baharian, S., Barakatt, M., Gignoux, C. R., Shringarpure, S., Errington, J., Blot, W. J., Bustamante, C. D., Kenny, E. E., Williams, S. M., Aldrich, M. C., et al. (2016) · PLOS Genetics · doi:10.1371/journal.pgen.1006059 · Cited by 176
A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome
Mathias, R. A., Taub, M. A., Gignoux, C. R., Fu, W., Musharoff, S., O'Connor, T. D., Vergara, C., Torgerson, D. G., Pino-Yanes, M., Shringarpure, S. S., et al. (2016) · Nature Communications · doi:10.1038/ncomms12522 · Cited by 167
Analysis of Genetic Variation in 28 Dog Breed Populations With 100 Microsatellite Markers
Irion, D. N. (2003) · Journal of Heredity · doi:10.1093/jhered/esg004 · Cited by 161
Parker, H. G., Kukekova, A. V., Akey, D. T., Goldstein, O., Kirkness, E. F., Baysac, K. C., Mosher, D. S., Aguirre, G. K., Acland, G. M., & Ostrander, E. A. (2007) · Genome Research · doi:10.1101/gr.6772807 · Cited by 152
Self-citationCrosby, A. W. (2009) · Food and History · doi:10.1484/j.food.1.100645 · Cited by 151
Origin, genetic diversity, and genome structure of the domestic dog
Wayne, R. K., & Ostrander, E. A. (1999) · BioEssays · Cited by 130
Self-citationAncient DNA Analysis Affirms the Canid from Altai as a Primitive Dog
Druzhkova, A. S., Thalmann, O., Trifonov, V. A., Leonard, J. A., Vorobieva, N. V., Ovodov, N. D., Graphodatsky, A. S., & Wayne, R. K. (2013) · PLoS ONE · doi:10.1371/journal.pone.0057754 · Cited by 118
Mealey, K. L., & Meurs, K. M. (2008) · Journal of the American Veterinary Medical Association · doi:10.2460/javma.233.6.921 · Cited by 108
Bruette, W. A. (1921) · doi:10.5962/bhl.title.42425 · Cited by 101
Koskinen, M. T. (2003) · Animal Genetics · doi:10.1046/j.1365-2052.2003.01005.x · Cited by 90
Quignon, P., Herbin, L., Cadieu, É., Kirkness, E. F., Hédan, B., Mosher, D. S., Galibert, F., André, C., Ostrander, E. A., & Hitte, C. (2007) · PLoS ONE · doi:10.1371/journal.pone.0001324 · Cited by 71
Self-citationDreger, D. L., Rimbault, M., Davis, B. W., Bhatnagar, A., Parker, H. G., & Ostrander, E. A. (2016) · Disease Models & Mechanisms · doi:10.1242/dmm.027037 · Cited by 62
Self-citationDonner, J., Kaukonen, M. K., Anderson, H., Möller, F., Kyöstilä, K., Sankari, S., Hytönen, M. K., Giger, U., & Lohi, H. (2016) · PLoS ONE · doi:10.1371/journal.pone.0161005 · Cited by 61
Witt, K. E., Judd, K. G., Kitchen, A., Grier, C., Kohler, T. A., Ortman, S. G., Kemp, B. M., & Malhi, R. S. (2014) · Journal of Human Evolution · doi:10.1016/j.jhevol.2014.10.012 · Cited by 56
Atlas of Dog Breeds of the World
Wilcox, B., & Walkowicz, C. (1995) · Medical Entomology and Zoology · Cited by 45
Genetic structure of the Newfoundland and Labrador population: founder effects modulate variability
Zhai, G., Zhou, J., Woods, M. O., Green, J. S., Parfrey, P. S., Rahman, P., & Green, R. C. (2015) · European Journal of Human Genetics · doi:10.1038/ejhg.2015.256 · Cited by 43
Vanishing native American dog lineages
Castroviejo‐Fisher, S., Skoglund, P., Valadez, R., Vilà, C., & Leonard, J. A. (2011) · BMC Evolutionary Biology · doi:10.1186/1471-2148-11-73 · Cited by 39
Dreger, D. L., Davis, B. W., Cocco, R., Sechi, S., Cerbo, A. D., Parker, H. G., Polli, M., Marelli, S. P., Crepaldi, P., & Ostrander, E. A. (2016) · Genetics · doi:10.1534/genetics.116.192427 · Cited by 37
Self-citationThe bald and the beautiful: hairlessness in domestic dog breeds
Parker, H. G., Harris, A. C., Dreger, D. L., Davis, B. W., & Ostrander, E. A. (2016) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2015.0488 · Cited by 27
Self-citationBrown, S. K., Darwent, C. M., Wictum, E. J., & Sacks, B. N. (2015) · Heredity · doi:10.1038/hdy.2015.49 · Cited by 25
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Bergström, A., Frantz, L., Schmidt, R., Ersmark, E., Lebrasseur, O., Girdland-Flink, L., Lin, A. T., Storå, J., Sjögren, K.-G., Anthony, D., et al. (2020) · Science · doi:10.1126/science.aba9572 · Cited by 297
The evolutionary history of dogs in the Americas
Ní Leathlobhair, M., Perri, A. R., Irving-Pease, E. K., Witt, K. E., Linderholm, A., Haile, J., Lebrasseur, O., Ameen, C., Blick, J., Boyko, A. R., et al. (2018) · Science · doi:10.1126/science.aao4776 · Cited by 184
Highly heritable and functionally relevant breed differences in dog behaviour
MacLean, E. L., Snyder-Mackler, N., vonHoldt, B. M., & Serpell, J. A. (2019) · Proceedings of the Royal Society B: Biological Sciences · doi:10.1098/rspb.2019.0716 · Cited by 144
Genetic testing of dogs predicts problem behaviors in clinical and nonclinical samples
Zapata, I., Lilly, M. L., Herron, M. E., Serpell, J. A., & Alvarez, C. E. (2022) · BMC Genomics · doi:10.1186/s12864-022-08351-9 · Cited by 40
Axelsson, E., Ljungvall, I., Bhoumik, P., Conn, L. B., Muren, E., Ohlsson, Å., Olsen, L. H., Engdahl, K., Hagman, R., Hanson, J., et al. (2021) · PLOS Genetics · doi:10.1371/journal.pgen.1009726 · Cited by 34
Metadata
- Authors
- Parker, H. G., Dreger, D. L., Rimbault, M., Davis, B. W., Mullen, A. B., Carpintero-Ramirez, G., & Ostrander, E. A.
- Venue
- Cell Reports
- Publisher
- Elsevier BV
- Published
- 2017-04
- Volume
- 19
- Issue
- 4
- Pages
- 697-708
- ISSN
- 2211-1247 (ISSN-L)
- OpenAlex
- W2609968664
- Cited by
- 435
- References
- 44
- FWCI
- 19.15
- Type
- journal article
- Language
- en
- Open access
- gold
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