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Research article - Peer-reviewed, 2021

Genetic variation in recombination rate in the pig

Johnsson, Martin; Whalen, Andrew; Ros-Freixedes, Roger; Gorjanc, Gregor; Chen, Ching-Yi; Herring, William O.; de Koning, Dirk-Jan; Hickey, John M.;

Abstract

Background Meiotic recombination results in the exchange of genetic material between homologous chromosomes. Recombination rate varies between different parts of the genome, between individuals, and is influenced by genetics. In this paper, we assessed the genetic variation in recombination rate along the genome and between individuals in the pig using multilocus iterative peeling on 150,000 individuals across nine genotyped pedigrees. We used these data to estimate the heritability of recombination and perform a genome-wide association study of recombination in the pig. Results Our results confirmed known features of the recombination landscape of the pig genome, including differences in genetic length of chromosomes and marked sex differences. The recombination landscape was repeatable between lines, but at the same time, there were differences in average autosome-wide recombination rate between lines. The heritability of autosome-wide recombination rate was low but not zero (on average 0.07 for females and 0.05 for males). We found six genomic regions that are associated with recombination rate, among which five harbour known candidate genes involved in recombination: RNF212, SHOC1, SYCP2, MSH4 and HFM1. Conclusions Our results on the variation in recombination rate in the pig genome agree with those reported for other vertebrates, with a low but nonzero heritability, and the identification of a major quantitative trait locus for recombination rate that is homologous to that detected in several other species. This work also highlights the utility of using large-scale livestock data to understand biological processes.

Published in

Genetics Selection Evolution

2021, volume: 53, number: 1, article number: 54

Authors' information

University of Edinburgh
Swedish University of Agricultural Sciences, Department of Animal Breeding and Genetics
Whalen, Andrew
University of Edinburgh
Ros-Freixedes, Roger
University of Edinburgh
Ros-Freixedes, Roger
Universitat de Lleida
Gorjanc, Gregor
University of Edinburgh
Chen, Ching-Yi
Genus Plc
Herring, William O.
Genus Plc
Swedish University of Agricultural Sciences, Department of Animal Breeding and Genetics
Hickey, John M.
University of Edinburgh

UKÄ Subject classification

Genetics and Breeding

Publication Identifiers

DOI: https://doi.org/10.1101/2020.03.17.995969

URI (permanent link to this page)

https://res.slu.se/id/publ/112805