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Home / Equine Research Bank / PLoS One / Genome-wide SNP analysis of Japanese Thoroughbred racehorses...
PloS one2019; 14(7); e0218407; doi: 10.1371/journal.pone.0218407

Genome-wide SNP analysis of Japanese Thoroughbred racehorses.

Abstract: The domestication process of plants and animals typically involves intense inbreeding and directional selection for various traits. Here, we genotyped 370 Japanese Thoroughbred horses using the recently developed 670k SNP array and performed various genome-wide analysis also using genotype data of other horse breeds. We identified a number of regions showing interesting patterns of polymorphisms. For instance, the region containing the MC1R locus associated with chestnut coat color may have been targeted by selection for a different mutation much earlier on than the recent selection for chestnut color. We also identified regions that show signatures of selection specific to Thoroughbreds. In addition, we found that intense inbreeding early in the history of the Thoroughbred breed and also before the formation of the breed has a significant impact on the genomic architecture of modern Thoroughbreds. Our study demonstrates that the horse 670k array can be utilized to gain important insight into the domestication process of horses and to understand the genetic basis of the phenotypic diversity in horses.
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Publication Date: 2019-07-24 PubMed ID: 31339891PubMed Central: PMC6655603DOI: 10.1371/journal.pone.0218407Google Scholar: Lookup
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Summary

This research summary has been generated with artificial intelligence and may contain errors and omissions. Refer to the original study to confirm details provided. Submit correction.

The research article focuses on analysing different regions in the genome of Japanese Thoroughbred horses using a technology called 670k SNP array. The goal was to understand patterns of polymorphism that may indicate selection for specific traits, inbreeding patterns, and variability in the genome.

Overview of Methods and Analysis

  • To investigate the genetic basis of the Japanese Thoroughbred horses, the researchers genotyped 370 horses with 670k SNP array, a technology that helps in understanding the genetic variability and traits.
  • The genomes of these horses were compared with other horse breeds to identify any distinct traits or genetic variations.
  • The researchers performed a genome-wide analysis to identify regions of the genome that displayed interesting patterns of polymorphisms, which indicate genetic variability.

Findings of the Research

  • The team found specific mutation patterns in the region containing the MC1R locus associated with chestnut coat color. This suggests that selection for this mutation happened earlier than the recent selection for a chestnut color.
  • Researchers identified regions showing signs of selection particularly unique to Thoroughbreds. This finding can contribute to our understanding of the breed, its characteristics, and the domestication process.
  • The research also indicated that the period of intense inbreeding early in the history of Thoroughbreds and before the breed was officially formed, has significantly influenced the genetic makeup of modern Thoroughbreds. This is an indication of how domestication practices can shape the genetic architecture of a breed.

Conclusions from the Study

  • The study concluded that the use of the 670k array technology brought out valuable insights into the domestication process of horses, specifically the Japanese Thoroughbred horses.
  • It also revealed that the technology could significantly assist future studies aimed at understanding and maximizing the genetic potential of horses and their phenotypic diversity, which includes visible traits like height, coat color, strength among others.

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Cite This Article

APA
Fawcett JA, Sato F, Sakamoto T, Iwasaki WM, Tozaki T, Innan H. (2019). Genome-wide SNP analysis of Japanese Thoroughbred racehorses. PLoS One, 14(7), e0218407. https://doi.org/10.1371/journal.pone.0218407

Publication

PloS one
ISSN: 1932-6203
NlmUniqueID: 101285081
Country: United States
Language: English
Volume: 14
Issue: 7
Pages: e0218407
PII: e0218407

Researcher Affiliations

Fawcett, Jeffrey A
  • SOKENDAI (The Graduate University for Advanced Studies), Hayama, Kanagawa 240-0193, Japan.
  • RIKEN iTHEMS, Wako, Saitama 351-0198, Japan.
Sato, Fumio
  • Hidaka Training and Research Center, Japan Racing Association, Hokkaido 057-0171, Japan.
Sakamoto, Takahiro
  • SOKENDAI (The Graduate University for Advanced Studies), Hayama, Kanagawa 240-0193, Japan.
Iwasaki, Watal M
  • SOKENDAI (The Graduate University for Advanced Studies), Hayama, Kanagawa 240-0193, Japan.
Tozaki, Teruaki
  • Genetic Analysis Department, Laboratory of Racing Chemistry, Utsunomiya, Tochigi 320-0851, Japan.
Innan, Hideki
  • SOKENDAI (The Graduate University for Advanced Studies), Hayama, Kanagawa 240-0193, Japan.

MeSH Terms

  • Animals
  • Breeding
  • Domestication
  • Genetic Variation
  • Genome / genetics
  • Genotype
  • Horses / genetics
  • Inbreeding
  • Japan
  • Phenotype
  • Polymorphism, Single Nucleotide / genetics
  • Selection, Genetic

Conflict of Interest Statement

FS is an employee of Hidaka Training and Research Center, Japan Racing Association; TT is an employee of Genetic Analysis Department, Laboratory of Racing Chemistry. This does not alter our adherence to PLOS ONE policies on sharing data and materials. All other authors declare that no competing interests exist.

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