Estimating Genomic Variance Explained per Chromosome Using Pedigree and Genomic Data in Sheep

C Esquivelzeta-Rabell; N Moghaddar; S Clark; J H J van der Werf

Estimating Genomic Variance Explained per Chromosome Using Pedigree and Genomic Data in Sheep

C Esquivelzeta-Rabell
, N Moghaddar
, S Clark
, J H J van der Werf

Research output: Contribution to journal › Conference article › peer-review

Abstract

We used a half sib data structure for a growth trait in sheep as a potentially powerful design for partitioning the genetic variance across the different chromosomes. Records for post weaning weight were used from 2455 merino sheep. The model of analysis accounted for population structure by fitting genetic group effects as well as the numerator relationship matrix (A) based on pedigree. We then fitted the matrix D representing the difference between the genomic relationship matrix (G) and A. The matrix G was based on 48,599 SNP markers across the entire genome, or on all SNPs of an individual chromosome. There was a relationship between chromosome length (L) and variance explained (Vgi), but we found significant differences in (Vgi/L) between chromosomes.

Original language	English
Article number	685
Pages (from-to)	1-3
Journal	Proceedings of the 10th World Congress on Genetics Applied to Livestock Production (WCGALP)
Issue number	Methods and Tools: Statistical and genomic tools for mapping ...
Publication status	Published - 2014
Event	WCGALP 2014: 10th World Congress on Genetics Applied to Livestock Production - Vancouver, Canada Duration: 17 Aug 2014 → 22 Aug 2014

Keywords

Animal Breeding

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https://hdl.handle.net/1959.11/18737

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Esquivelzeta-Rabell, C., Moghaddar, N., Clark, S., & van der Werf, J. H. J. (2014). Estimating Genomic Variance Explained per Chromosome Using Pedigree and Genomic Data in Sheep. Proceedings of the 10th World Congress on Genetics Applied to Livestock Production (WCGALP), (Methods and Tools: Statistical and genomic tools for mapping ...), 1-3. Article 685. https://hdl.handle.net/1959.11/18737

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title = "Estimating Genomic Variance Explained per Chromosome Using Pedigree and Genomic Data in Sheep",

abstract = "We used a half sib data structure for a growth trait in sheep as a potentially powerful design for partitioning the genetic variance across the different chromosomes. Records for post weaning weight were used from 2455 merino sheep. The model of analysis accounted for population structure by fitting genetic group effects as well as the numerator relationship matrix (A) based on pedigree. We then fitted the matrix D representing the difference between the genomic relationship matrix (G) and A. The matrix G was based on 48,599 SNP markers across the entire genome, or on all SNPs of an individual chromosome. There was a relationship between chromosome length (L) and variance explained (Vgi), but we found significant differences in (Vgi/L) between chromosomes.",

keywords = "Animal Breeding",

author = "C Esquivelzeta-Rabell and N Moghaddar and S Clark and \{van der Werf\}, \{J H J\}",

year = "2014",

language = "English",

pages = "1--3",

journal = "Proceedings of the 10th World Congress on Genetics Applied to Livestock Production (WCGALP)",

publisher = "American Society of Animal Science",

number = "Methods and Tools: Statistical and genomic tools for mapping ...",

note = "WCGALP 2014: 10th World Congress on Genetics Applied to Livestock Production ; Conference date: 17-08-2014 Through 22-08-2014",

}

Esquivelzeta-Rabell, C, Moghaddar, N, Clark, S & van der Werf, JHJ 2014, 'Estimating Genomic Variance Explained per Chromosome Using Pedigree and Genomic Data in Sheep', Proceedings of the 10th World Congress on Genetics Applied to Livestock Production (WCGALP), no. Methods and Tools: Statistical and genomic tools for mapping ..., 685, pp. 1-3. <https://hdl.handle.net/1959.11/18737>

Estimating Genomic Variance Explained per Chromosome Using Pedigree and Genomic Data in Sheep. / Esquivelzeta-Rabell, C; Moghaddar, N; Clark, S et al.
In: Proceedings of the 10th World Congress on Genetics Applied to Livestock Production (WCGALP), No. Methods and Tools: Statistical and genomic tools for mapping ..., 685, 2014, p. 1-3.

Research output: Contribution to journal › Conference article › peer-review

TY - JOUR

T1 - Estimating Genomic Variance Explained per Chromosome Using Pedigree and Genomic Data in Sheep

AU - Esquivelzeta-Rabell, C

AU - Moghaddar, N

AU - Clark, S

AU - van der Werf, J H J

PY - 2014

Y1 - 2014

N2 - We used a half sib data structure for a growth trait in sheep as a potentially powerful design for partitioning the genetic variance across the different chromosomes. Records for post weaning weight were used from 2455 merino sheep. The model of analysis accounted for population structure by fitting genetic group effects as well as the numerator relationship matrix (A) based on pedigree. We then fitted the matrix D representing the difference between the genomic relationship matrix (G) and A. The matrix G was based on 48,599 SNP markers across the entire genome, or on all SNPs of an individual chromosome. There was a relationship between chromosome length (L) and variance explained (Vgi), but we found significant differences in (Vgi/L) between chromosomes.

AB - We used a half sib data structure for a growth trait in sheep as a potentially powerful design for partitioning the genetic variance across the different chromosomes. Records for post weaning weight were used from 2455 merino sheep. The model of analysis accounted for population structure by fitting genetic group effects as well as the numerator relationship matrix (A) based on pedigree. We then fitted the matrix D representing the difference between the genomic relationship matrix (G) and A. The matrix G was based on 48,599 SNP markers across the entire genome, or on all SNPs of an individual chromosome. There was a relationship between chromosome length (L) and variance explained (Vgi), but we found significant differences in (Vgi/L) between chromosomes.

KW - Animal Breeding

UR - https://asas.org/docs/default-source/wcgalp-posters/685_paper_9974_manuscript_1678_0b.pdf

M3 - Conference article

SP - 1

EP - 3

JO - Proceedings of the 10th World Congress on Genetics Applied to Livestock Production (WCGALP)

JF - Proceedings of the 10th World Congress on Genetics Applied to Livestock Production (WCGALP)

IS - Methods and Tools: Statistical and genomic tools for mapping ...

M1 - 685

T2 - WCGALP 2014: 10th World Congress on Genetics Applied to Livestock Production

Y2 - 17 August 2014 through 22 August 2014

ER -

Estimating Genomic Variance Explained per Chromosome Using Pedigree and Genomic Data in Sheep

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