Complex population structure in African village dogs and its implications for inferring dog domestication history

Boyko, Adam R.; Boyko, Ryan H.; Boyko, Corin M.; Parker, Heidi G.; Castelhano, Marta G.; Corey, Liz; Degenhardt, Jeremiah D.; Auton, Adam; Hedimbi, Marius; Kityo, Robert; Ostrander, Elaine A.; Schoenebeck, Jeffrey J.; Todhunter, Rory J.; Jones, Paul; Bustamante, Carlos D.

doi:10.1073/pnas.0902129106

Cited by 149 publications

(136 citation statements)

References 26 publications

Supporting

Mentioning

127

Contrasting

Unclassified

Order By: Relevance

“…The sequence divergence between the Tibetan Mastiff and the gray wolf (0.70) was smaller than that between the Tibetan Mastiff and the Tibetan wolf (3.30), and between the Tibetan Mastiff and coyote (5.27). This suggested that the Tibetan Mastiff originated from the gray wolf, the same as with other domestic dogs (Vilà et al, 1997;Leonard et al, 2002;Verginelli et al, 2005;Boyko et al, 2009;Pang et al, 2009), and is consistent with the results of Li et al (2008). For the protein-coding genes, tRNAs and rRNAs, a decreasing trend in the number of identified variable sites, also showed that there was a closer relationship between domestic dogs and gray wolves than between domestic dogs and coyotes.…”

Section: Discussionsupporting

confidence: 77%

Complete sequence of the Tibetan Mastiff mitochondrial genome and its phylogenetic relationship with other Canids (Canis, Canidae)

Zhao

et al. 2011

Animal

View full text Add to dashboard Cite

In this study, the complete sequence of the Tibetan Mastiff mitochondrial genome (mtDNA) was determined, and the phylogenetic relationships between the Tibetan Mastiff and other species of Canidae were analyzed using the coyote (Canis latrans) as an outgroup. The complete nucleotide sequence of the Tibetan Mastiff mtDNA was 16 710 bp, and included 22 tRNA genes, 2S rRNA gene, 13 protein-coding genes and one non-coding region (D-loop region), which is similar to other mammalian mitochondrial genomes. The characteristics of the protein-coding genes, non-coding region, tRNA and rRNA genes among Canidae were analyzed in detail. Neighbor-joining and maximum-parsimony trees of Canids constructed using 12 mitochondrial protein-coding genes showed that as the coyotes and Tibetan wolves clustered together, so too did the gray wolves and domestic dogs, suggesting that the Tibetan Mastiff originated from the gray wolf as did other domestic dogs. Domestic dogs clustered into four clades, implying at least four maternal origins (A to D). The Tibetan Mastiff, which belongs to clade A, appears to be closely related to the Saint Bernard and the Old English Sheepdog.

show abstract

Section: Discussionsupporting

confidence: 77%

Complete sequence of the Tibetan Mastiff mitochondrial genome and its phylogenetic relationship with other Canids (Canis, Canidae)

Zhao

et al. 2011

Animal

View full text Add to dashboard Cite

show abstract

“…The genetic landscape that we observe is that of a complex conglomerate, in contrast to similar analyses in other species with a much more marked structure, such as dogs. Nevertheless, the analyses of village dogs have also proven to be much more complex than those of well-established breeds (Boyko et al, 2009). In particular, we did not observe that genetic distance or average F ST was a proxy for geographic distance, likely because livestock populations have a great mobility and corresponding complex genetic histories.…”

Section: Discussionmentioning

confidence: 68%

Porcine colonization of the Americas: a 60k SNP story

et al. 2012

View full text Add to dashboard Cite

The pig, Sus scrofa, is a foreign species to the American continent. Although pigs originally introduced in the Americas should be related to those from the Iberian Peninsula and Canary islands, the phylogeny of current creole pigs that now populate the continent is likely to be very complex. Because of the extreme climates that America harbors, these populations also provide a unique example of a fast evolutionary phenomenon of adaptation. Here, we provide a genome wide study of these issues by genotyping, with a 60k SNP chip, 206 village pigs sampled across 14 countries and 183 pigs from outgroup breeds that are potential founders of the American populations, including wild boar, Iberian, international and Chinese breeds. Results show that American village pigs are primarily of European ancestry, although the observed genetic landscape is that of a complex conglomerate. There was no correlation between genetic and geographical distances, neither continent wide nor when analyzing specific areas. Most populations showed a clear admixed structure where the Iberian pig was not necessarily the main component, illustrating how international breeds, but also Chinese pigs, have contributed to extant genetic composition of American village pigs. We also observe that many genes related to the cardiovascular system show an increased differentiation between altiplano and genetically related pigs living near sea level.

show abstract

“…Boyko et al (2009) sampled microsatellites and SNPs from village dogs from Egypt to Namibia and pure bred dogs of putative African origin. They found that African village dogs display high genetic diversity and are remarkably free from admixture with non-African breeds, except in two exceptional situations of deliberate breeding.…”

Section: Dogsmentioning

confidence: 99%

Domesticating Animals in Africa: Implications of Genetic and Archaeological Findings

2011

View full text Add to dashboard Cite

Domestication is an ongoing co-evolutionary process rather than an event or invention. Recent zooarchaeological and animal genetics research has prompted a thorough revision of our perspectives on the history of domestic animals in Africa. Genetic analyses of domestic animal species have revealed that domestic donkeys are descended from African ancestors, opened a debate over the contribution of indigenous aurochs to African domestic cattle, revealed an earlier and possibly exogenous origin of the domestic cat, and reframed our vision of African dogs. Genetic diversity studies and mapping of unique traits in African cattle, sheep, goats, pigs and chickens indicate adaptations to regional environmental challenges and suggest hitherto unknown and complex patterns of interactions both among Africans and with Southwest Asia and other Asian regions on the Indian Ocean. This article argues against the static perspective on domestication as invention and for viewing it as a dynamic, locally based and continuing process.

show abstract

Complex population structure in African village dogs and its implications for inferring dog domestication history

Cited by 149 publications

References 26 publications

Complete sequence of the Tibetan Mastiff mitochondrial genome and its phylogenetic relationship with other Canids (Canis, Canidae)

Complete sequence of the Tibetan Mastiff mitochondrial genome and its phylogenetic relationship with other Canids (Canis, Canidae)

Porcine colonization of the Americas: a 60k SNP story

Domesticating Animals in Africa: Implications of Genetic and Archaeological Findings

Contact Info

Product

Resources

About