Estimation of the extent of linkage disequilibrium in seven regions of the porcine genome

B.J. Jungerius; J. Gu; R.P.M.A. Crooijmans; J.J. van der Poel; M.A.M. Groenen; B.A. van Oost; M.F.W. te Pas

doi:10.1081/ABIO-200053402

Estimation of the extent of linkage disequilibrium in seven regions of the porcine genome

B.J. Jungerius, J. Gu, R.P.M.A. Crooijmans, J.J. van der Poel, M.A.M. Groenen, B.A. van Oost, M.F.W. te Pas

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17 Citations (Scopus)

Abstract

Linkage disequilibrium (LD) refers to the correlation among neighboring alleles, reflecting non-random patterns of association between alleles at (nearby) loci. A better understanding of LD in the porcine genome is of direct relevance for identification of genes and mutations with a certain effect on the traits of interest. Here, 215 SNPs in seven genomic regions were genotyped in individuals of three breeds. Pairwise linkage disequilibrium was calculated for all marker pairs. To estimate the extent of LD, all pairwise LD values were plotted against the distance between the markers. Based on SNP markers in four genomic regions analyzed in three panels from populations of Large White, Dutch Landrace, and Meishan origin, useful LD is estimated to extend for approximately 40 to 60 kb in the porcine genome

Original language	English
Pages (from-to)	41-54
Journal	Animal Biotechnology
Volume	16
Issue number	1
DOIs	https://doi.org/10.1081/ABIO-200053402
Publication status	Published - 2005

Keywords

single nucleotide polymorphism
human lipoprotein-lipase
sequence variation
populations
genes
locus

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title = "Estimation of the extent of linkage disequilibrium in seven regions of the porcine genome",

abstract = "Linkage disequilibrium (LD) refers to the correlation among neighboring alleles, reflecting non-random patterns of association between alleles at (nearby) loci. A better understanding of LD in the porcine genome is of direct relevance for identification of genes and mutations with a certain effect on the traits of interest. Here, 215 SNPs in seven genomic regions were genotyped in individuals of three breeds. Pairwise linkage disequilibrium was calculated for all marker pairs. To estimate the extent of LD, all pairwise LD values were plotted against the distance between the markers. Based on SNP markers in four genomic regions analyzed in three panels from populations of Large White, Dutch Landrace, and Meishan origin, useful LD is estimated to extend for approximately 40 to 60 kb in the porcine genome",

keywords = "single nucleotide polymorphism, human lipoprotein-lipase, sequence variation, populations, genes, locus",

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T1 - Estimation of the extent of linkage disequilibrium in seven regions of the porcine genome

AU - Jungerius, B.J.

AU - Gu, J.

AU - Crooijmans, R.P.M.A.

AU - van der Poel, J.J.

AU - Groenen, M.A.M.

AU - van Oost, B.A.

AU - te Pas, M.F.W.

PY - 2005

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N2 - Linkage disequilibrium (LD) refers to the correlation among neighboring alleles, reflecting non-random patterns of association between alleles at (nearby) loci. A better understanding of LD in the porcine genome is of direct relevance for identification of genes and mutations with a certain effect on the traits of interest. Here, 215 SNPs in seven genomic regions were genotyped in individuals of three breeds. Pairwise linkage disequilibrium was calculated for all marker pairs. To estimate the extent of LD, all pairwise LD values were plotted against the distance between the markers. Based on SNP markers in four genomic regions analyzed in three panels from populations of Large White, Dutch Landrace, and Meishan origin, useful LD is estimated to extend for approximately 40 to 60 kb in the porcine genome

AB - Linkage disequilibrium (LD) refers to the correlation among neighboring alleles, reflecting non-random patterns of association between alleles at (nearby) loci. A better understanding of LD in the porcine genome is of direct relevance for identification of genes and mutations with a certain effect on the traits of interest. Here, 215 SNPs in seven genomic regions were genotyped in individuals of three breeds. Pairwise linkage disequilibrium was calculated for all marker pairs. To estimate the extent of LD, all pairwise LD values were plotted against the distance between the markers. Based on SNP markers in four genomic regions analyzed in three panels from populations of Large White, Dutch Landrace, and Meishan origin, useful LD is estimated to extend for approximately 40 to 60 kb in the porcine genome

KW - single nucleotide polymorphism

KW - human lipoprotein-lipase

KW - sequence variation

KW - populations

KW - genes

KW - locus

U2 - 10.1081/ABIO-200053402

DO - 10.1081/ABIO-200053402

M3 - Article

SN - 1049-5398

VL - 16

SP - 41

EP - 54

JO - Animal Biotechnology

JF - Animal Biotechnology

IS - 1

ER -

Estimation of the extent of linkage disequilibrium in seven regions of the porcine genome

Abstract

Keywords

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