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Identification and validation of genetic variants predictive of gait in standardbred horses
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- McCoy, Annette M. (författare)
- Univ Illinois, Dept Vet Clin Med, Urbana, IL 61801 USA
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- Beeson, Samantha K. (författare)
- Univ Minnesota, Vet Populat Med Dept, St Paul, MN 55108 USA
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- Rubin, Carl-Johan (författare)
- Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi
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- Andersson, Leif (författare)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Swedish Univ Agr Sci, Dept Anim Breeding & Genet, Uppsala, Sweden;Texas A&M Univ, Dept Vet Integrat Biosci, College Stn, TX USA,Institutionen för husdjursgenetik (HGEN),Department of Animal Breeding and Genetics,Uppsala University,Texas A&M University
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- Caputo, Paul (författare)
- Paul Caputo, DVM, Pompano Beach, FL USA
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- Lykkjen, Sigrid (författare)
- Norwegian Univ Life Sci, Fac Vet Med, Oslo, Norway
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- Moore, Alison (författare)
- Moore Equine Serv, Cambridge, ON, Canada
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- Piercy, Richard J. (författare)
- Royal Vet Coll, Dept Clin Sci & Serv, London, England
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- Mickelson, James R. (författare)
- Univ Minnesota, Vet & Biomed Sci Dept, St Paul, MN 55108 USA
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- McCue, Molly E. (författare)
- Univ Minnesota, Vet Populat Med Dept, St Paul, MN 55108 USA
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(creator_code:org_t)
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- 2019-05-28
- 2019
- Engelska.
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Ingår i: PLOS Genetics. - : PUBLIC LIBRARY SCIENCE. - 1553-7390 .- 1553-7404. ; 15:5
- Relaterad länk:
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https://doi.org/10.1...
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https://uu.diva-port... (primary) (Raw object)
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Ämnesord
Stäng
- Several horse breeds have been specifically selected for the ability to exhibit alternative patterns of locomotion, or gaits. A premature stop codon in the gene DMRT3 is permissive for gaitedness across breeds. However, this mutation is nearly fixed in both American Standardbred trotters and pacers, which perform a diagonal and lateral gait, respectively, during harness racing. This suggests that modifying alleles must influence the preferred gait at racing speeds in these populations. A genome-wide association analysis for the ability to pace was performed in 542 Standardbred horses (n = 176 pacers, n = 366 trotters) with genotype data imputed to similar to 74,000 single nucleotide polymorphisms (SNPs). Nineteen SNPs on nine chromosomes (ECA1, 2, 6, 9, 17, 19, 23, 25, 31) reached genome-wide significance (p < 1.44 x 10(-6)). Variant discovery in regions of interest was carried out via whole-genome sequencing. A set of 303 variants from 22 chromosomes with putative modifying effects on gait was genotyped in 659 Standardbreds (n = 231 pacers, n = 428 trotters) using a high-throughput assay. Random forest classification analysis resulted in an out-of-box error rate of 0.61%. A conditional inference tree algorithm containing seven SNPs predicted status as a pacer or trotter with 99.1% accuracy and subsequently performed with 99.4% accuracy in an independently sampled population of 166 Standardbreds (n = 83 pacers, n = 83 trotters). This highly accurate algorithm could be used by owners/trainers to identify Standardbred horses with the potential to race as pacers or as trotters, according to the genotype identified, prior to initiating training and would enable fine-tuning of breeding programs with designed matings. Additional work is needed to determine both the algorithm's utility in other gaited breeds and whether any of the predictive SNPs play a physiologically functional role in the tendency to pace or tag true functional alleles.
Ämnesord
- LANTBRUKSVETENSKAPER -- Bioteknologi med applikationer på växter och djur -- Genetik och förädling inom lantbruksvetenskap (hsv//swe)
- AGRICULTURAL SCIENCES -- Agricultural Biotechnology -- Genetics and Breeding in Agricultural Sciences (hsv//eng)
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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McCoy, Annette M ...
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Beeson, Samantha ...
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Rubin, Carl-Joha ...
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Andersson, Leif
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Caputo, Paul
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Lykkjen, Sigrid
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visa fler...
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Moore, Alison
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Piercy, Richard ...
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Mickelson, James ...
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McCue, Molly E.
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