Linkage disequilibrium in the domesticated pig.
This study investigated the extent of linkage disequilibrium (LD) in two genomic regions (on chromosomes 4 and 7) in five populations of domesticated pigs. LD was measured with D' and tested for significance with the Fisher exact test. Effects of genetic (linkage) distance, chromosome, population, and their interactions on D' were tested both through a linear model analysis of covariance and by a theoretical nonlinear model. The overall result was that (1) the distance explained most of the variability of D', (2) the effect of chromosome was significant, and (3) the effect of population was significant. The significance of the chromosome effect may have resulted from selection and the significance of the population effect illustrates the effects of population structures and effective population sizes on LD. These results suggest that mapping methods based on LD may be valuable even with only moderately dense marker spacing in pigs.
Nsengimana
Jérémie
J
Université Catholique de Louvain, Faculté d'Ingénierie Biologique, Agronomique et Environnementale, Unité de Génétique, 1348 Louvain-la-Neuve, Belgium.
Baret
Philippe
P
Haley
Chris S
CS
Visscher
Peter M
PM
D000483:Alleles; D000818:Animals; D002874:Chromosome Mapping; D005260:Female; D005819:Genetic Markers; D005828:Genetics, Population; D006239:Haplotypes; D015810:Linkage Disequilibrium; D008297:Male; D009010:Monte Carlo Method; D015999:Multivariate Analysis; D040641:Quantitative Trait Loci; D034421:Sus scrofa / Q000235:genetics*
D005819:Genetic Markers