High Density Recombination Map of the Pig

NETHERLANDS - The analysis of the recombination rate along the pig genome highlighted that the regions exhibiting higher levels of recombination tend to cluster around the ends of the chromosomes irrespective of the location of the centromere.
calendar icon 10 January 2013
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Researchers of ABGC (Wageningen University), Great Britain and America observed major sex-differences in recombination with females showing a higher recombination rate within GC-rich regions and exhibiting a stronger correlation between recombination rates and specific sequence features.

In this study, 4 different pig pedigrees were genotyped using the Illumina PorcineSNP60 BeadChip and computed recombination maps for the autosomes. The resulting genetic maps comprised 38,599 SNPs, including 928 SNPs not positioned on a chromosome in the current assembly of the pig genome (build 10.2).

The total genetic length varied according to the pedigree, from 1797 to 2149 cM. Female maps were longer than male maps, with a notable exception for SSC1 where male maps are characterized by a higher recombination rate than females in the region between 91–250 Mb. The recombination rates varied among chromosomes and along individual chromosomes, regions with high recombination rates tending to cluster close to the chromosome ends, irrespective of the position of the centromere.

Correlations between main sequence features and recombination rates were investigated and significant correlations were obtained for all the studied motifs. Regions characterized by high recombination rates were enriched for specific GC-rich sequence motifs as compared to low recombinant regions. These correlations were higher in females than in males, and females were found to be more recombinant than males at regions where the GC content was greater than 0.4.

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