Jan 12, 2013

Extent of linkage disequilibrium in the domestic cat, Felis silvestris catus, and its breeds

PloS One
Hasan AlhaddadLeslie A Lyons

Abstract

Domestic cats have a unique breeding history and can be used as models for human hereditary and infectious diseases. In the current era of genome-wide association studies, insights regarding linkage disequilibrium (LD) are essential for efficient association studies. The objective of this study is to investigate the extent of LD in the domestic cat, Felis silvestris catus, particularly within its breeds. A custom illumina GoldenGate Assay consisting of 1536 single nucleotide polymorphisms (SNPs) equally divided over ten 1 Mb chromosomal regions was developed, and genotyped across 18 globally recognized cat breeds and two distinct random bred populations. The pair-wise LD descriptive measure (r(2)) was calculated between the SNPs in each region and within each population independently. LD decay was estimated by determining the non-linear least-squares of all pair-wise estimates as a function of distance using established models. The point of 50% decay of r(2) was used to compare the extent of LD between breeds. The longest extent of LD was observed in the Burmese breed, where the distance at which r(2) ≈ 0.25 was ∼380 kb, comparable to several horse and dog breeds. The shortest extent of LD was found in the Siberian breed, with ...Continue Reading

  • References60
  • Citations34

References

Mentioned in this Paper

Genome-Wide Association Study
Microarray Analysis
Equine Laminitis
Genetic Disorders Screening
Pet Animal
Genome
Dysequilibrium Syndrome
Recombination, Genetic
Centromere
Thyroid Hormone Plasma Membrane Transport Defect

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