Detecting genetic regions associated with height in the native ponies of the British Isles by using high density SNP genotyping

I. Skujina; C. L. Winton; M. J. Hegarty; R. McMahon; D. M. Nash; M. C. G. Davies-Morel; N. R. McEwan

doi:10.1139/gen-2018-0006

Detecting genetic regions associated with height in the native ponies of the British Isles by using high density SNP genotyping

I. Skujina, C. L. Winton, M. J. Hegarty, R. McMahon, D. M. Nash, M. C. G. Davies-Morel, N. R. McEwan

Department of Life Sciences

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Abstract

Height is an important characteristic in the equine industry although little is known about its genetic control in native British breeds of ponies. This study aimed to map QTL data with the withers height in four pony breeds native to the British Isles, including two different sections within Welsh Cobs. In this study, a genome-wide analysis approach using the Illumina EquineSNP50 Infinium BeadChip was applied to 105 ponies and cobs. Analysis identified 222 highly significant height-associated SNPs (P ≤ 10 ^-5), among which three SNPs on ECA9 have also been previously reported elsewhere. The highest number of significant SNPs associated to height in the native British horses were located on ECA1, ECA8, and ECA16.

Original language	English
Pages (from-to)	767-770
Number of pages	4
Journal	Genome
Volume	61
Issue number	10
Early online date	05 Sept 2018
DOIs	https://doi.org/10.1139/gen-2018-0006
Publication status	Published - Oct 2018

Keywords

Genome-wide association
Height
High density genotyping
Horse
Quantitative trait loci
Single nucleotide polymorphisms
Breeding
Chromosome Mapping
Biometry
Horses/anatomy & histology
Animals
High-Throughput Nucleotide Sequencing
Polymorphism, Single Nucleotide
Whole Genome Sequencing/methods
Genotyping Techniques/methods
Chromosomes, Mammalian/genetics
Quantitative Trait Loci

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Detecting genetic regions associated with height in the native ponies of the British Isles by using high density SNP genotypingAccepted author manuscript, 462 KBLicence: CC BY-NC

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title = "Detecting genetic regions associated with height in the native ponies of the British Isles by using high density SNP genotyping",

abstract = "Height is an important characteristic in the equine industry although little is known about its genetic control in native British breeds of ponies. This study aimed to map QTL data with the withers height in four pony breeds native to the British Isles, including two different sections within Welsh Cobs. In this study, a genome-wide analysis approach using the Illumina EquineSNP50 Infinium BeadChip was applied to 105 ponies and cobs. Analysis identified 222 highly significant height-associated SNPs (P ≤ 10 -5), among which three SNPs on ECA9 have also been previously reported elsewhere. The highest number of significant SNPs associated to height in the native British horses were located on ECA1, ECA8, and ECA16.",

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author = "I. Skujina and Winton, {C. L.} and Hegarty, {M. J.} and R. McMahon and Nash, {D. M.} and Davies-Morel, {M. C. G.} and McEwan, {N. R.}",

note = "Publisher Copyright: {\textcopyright} 2018 Published by NRC Research Press.",

year = "2018",

month = oct,

doi = "10.1139/gen-2018-0006",

language = "English",

volume = "61",

pages = "767--770",

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T1 - Detecting genetic regions associated with height in the native ponies of the British Isles by using high density SNP genotyping

AU - Skujina, I.

AU - Winton, C. L.

AU - Hegarty, M. J.

AU - McMahon, R.

AU - Nash, D. M.

AU - Davies-Morel, M. C. G.

AU - McEwan, N. R.

PY - 2018/10

Y1 - 2018/10

N2 - Height is an important characteristic in the equine industry although little is known about its genetic control in native British breeds of ponies. This study aimed to map QTL data with the withers height in four pony breeds native to the British Isles, including two different sections within Welsh Cobs. In this study, a genome-wide analysis approach using the Illumina EquineSNP50 Infinium BeadChip was applied to 105 ponies and cobs. Analysis identified 222 highly significant height-associated SNPs (P ≤ 10 -5), among which three SNPs on ECA9 have also been previously reported elsewhere. The highest number of significant SNPs associated to height in the native British horses were located on ECA1, ECA8, and ECA16.

AB - Height is an important characteristic in the equine industry although little is known about its genetic control in native British breeds of ponies. This study aimed to map QTL data with the withers height in four pony breeds native to the British Isles, including two different sections within Welsh Cobs. In this study, a genome-wide analysis approach using the Illumina EquineSNP50 Infinium BeadChip was applied to 105 ponies and cobs. Analysis identified 222 highly significant height-associated SNPs (P ≤ 10 -5), among which three SNPs on ECA9 have also been previously reported elsewhere. The highest number of significant SNPs associated to height in the native British horses were located on ECA1, ECA8, and ECA16.

KW - Genome-wide association

KW - Height

KW - High density genotyping

KW - Horse

KW - Quantitative trait loci

KW - Single nucleotide polymorphisms

KW - Breeding

KW - Chromosome Mapping

KW - Biometry

KW - Horses/anatomy & histology

KW - Animals

KW - High-Throughput Nucleotide Sequencing

KW - Polymorphism, Single Nucleotide

KW - Whole Genome Sequencing/methods

KW - Genotyping Techniques/methods

KW - Chromosomes, Mammalian/genetics

KW - Quantitative Trait Loci

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U2 - 10.1139/gen-2018-0006

DO - 10.1139/gen-2018-0006

M3 - Article

C2 - 30184439

SN - 0831-2796

VL - 61

SP - 767

EP - 770

JO - Genome

JF - Genome

IS - 10

ER -

Detecting genetic regions associated with height in the native ponies of the British Isles by using high density SNP genotyping

Abstract

Keywords

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