Genetic diversity and relationships among native Japanese horse breeds, the Japanese Thoroughbred and horses outside of Japan using genome-wide SNP data

T. Tozaki, M. Kikuchi, H. Kakoi, K. Hirota, S. Nagata, D. Yamashita, T. Ohnuma, M. Takasu, I. Kobayashi, S. Hobo, D. Manglai, J. L. Petersen

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

Eight horse breeds—Hokkaido, Kiso, Misaki, Noma, Taishu, Tokara, Miyako and Yonaguni—are native to Japan. Although Japanese native breeds are believed to have originated from ancient Mongolian horses imported from the Korean Peninsula, the phylogenetic relationships among these breeds are not well elucidated. In the present study, we compared genetic diversity among 32 international horse breeds previously evaluated by the Equine Genetic Diversity Consortium, the eight Japanese native breeds and Japanese Thoroughbreds using genome-wide SNP genotype data. The proportion of polymorphic loci and expected heterozygosity showed that the native Japanese breeds, with the exception of the Hokkaido, have relatively low diversity compared to the other breeds sampled. Phylogenetic and cluster analyses demonstrated relationships among the breeds that largely reflect their geographic distribution in Japan. Based on these data, we suggest that Japanese horses originated from Mongolian horses migrating through the Korean Peninsula. The Japanese Thoroughbreds were distinct from the native breeds, and although they maintain similar overall diversity as Thoroughbreds from outside Japan, they also show evidence of uniqueness relative to the other Thoroughbred samples. This is the first study to place the eight native Japanese breeds and Japanese Thoroughbred in context with an international sample of diverse breeds.

Original languageEnglish (US)
Pages (from-to)449-459
Number of pages11
JournalAnimal genetics
Volume50
Issue number5
DOIs
StatePublished - Oct 1 2019

Fingerprint

horse breeds
genetic relationships
Horses
Single Nucleotide Polymorphism
Japan
Genome
breeds
horses
genetic variation
genome
Noma
Korean Peninsula
Cluster Analysis
phylogeny
Genotype
heterozygosity
geographical distribution
sampling
loci
genotype

Keywords

  • Hokkaido
  • Mongolian
  • breed history
  • equine

ASJC Scopus subject areas

  • Animal Science and Zoology
  • Genetics

Cite this

Genetic diversity and relationships among native Japanese horse breeds, the Japanese Thoroughbred and horses outside of Japan using genome-wide SNP data. / Tozaki, T.; Kikuchi, M.; Kakoi, H.; Hirota, K.; Nagata, S.; Yamashita, D.; Ohnuma, T.; Takasu, M.; Kobayashi, I.; Hobo, S.; Manglai, D.; Petersen, J. L.

In: Animal genetics, Vol. 50, No. 5, 01.10.2019, p. 449-459.

Research output: Contribution to journalArticle

Tozaki, T, Kikuchi, M, Kakoi, H, Hirota, K, Nagata, S, Yamashita, D, Ohnuma, T, Takasu, M, Kobayashi, I, Hobo, S, Manglai, D & Petersen, JL 2019, 'Genetic diversity and relationships among native Japanese horse breeds, the Japanese Thoroughbred and horses outside of Japan using genome-wide SNP data', Animal genetics, vol. 50, no. 5, pp. 449-459. https://doi.org/10.1111/age.12819
Tozaki, T. ; Kikuchi, M. ; Kakoi, H. ; Hirota, K. ; Nagata, S. ; Yamashita, D. ; Ohnuma, T. ; Takasu, M. ; Kobayashi, I. ; Hobo, S. ; Manglai, D. ; Petersen, J. L. / Genetic diversity and relationships among native Japanese horse breeds, the Japanese Thoroughbred and horses outside of Japan using genome-wide SNP data. In: Animal genetics. 2019 ; Vol. 50, No. 5. pp. 449-459.
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