Genetic variation in recombination rate in the pig

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 al...

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Autores: Johnsson, Martin, Whalen, Andrew, Ros Freixedes, Roger, Gorjanc, Gregor, Chen, Ching-Yi, Herring, William O., Koning, Dirk‑Jan de, Hickey, John M.
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2021
País:España
Institución:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repositorio:Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:oai:recercat.cat:10459.1/71630
Acceso en línea:https://doi.org/10.1186/s12711-021-00643-0
http://hdl.handle.net/10459.1/71630
Access Level:acceso abierto
Palabra clave:Porcs
Genètica animal
Genètica veterinària
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spelling Genetic variation in recombination rate in the pigJohnsson, MartinWhalen, AndrewRos Freixedes, RogerGorjanc, GregorChen, Ching-YiHerring, William O.Koning, Dirk‑Jan deHickey, John M.PorcsGenètica animalGenètica veterinàriaBackground: 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.Open access funding provided by Swedish University of Agricultural Sciences. The authors acknowledge the financial support from the BBSRC ISPG to The Roslin Institute BBS/E/D/30002275, from Grant Nos. BB/N015339/1, BB/L020467/1, BB/M009254/1, from Genus PLC, Innovate UK, and from Formas – a Swedish Research Council for Sustainable Development Dnr 2016–01386.BMC (part of Springer Nature)2021202120212021info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfhttps://doi.org/10.1186/s12711-021-00643-0http://hdl.handle.net/10459.1/71630http://hdl.handle.net/10459.1/71630reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)InglésReproducció del document publicat a: https://doi.org/10.1186/s12711-021-00643-0Genetics Selection Evolution, 2021, vol. 53, article number 54cc-by (c) Johnsson, Martin et al., 2021cc-by (c) Johnsson et al., 2021info:eu-repo/semantics/openAccesshttp://creativecommons.org/licenses/by/3.0/esoai:recercat.cat:10459.1/716302026-05-29T05:05:01Z
dc.title.none.fl_str_mv Genetic variation in recombination rate in the pig
title Genetic variation in recombination rate in the pig
spellingShingle Genetic variation in recombination rate in the pig
Johnsson, Martin
Porcs
Genètica animal
Genètica veterinària
title_short Genetic variation in recombination rate in the pig
title_full Genetic variation in recombination rate in the pig
title_fullStr Genetic variation in recombination rate in the pig
title_full_unstemmed Genetic variation in recombination rate in the pig
title_sort Genetic variation in recombination rate in the pig
dc.creator.none.fl_str_mv Johnsson, Martin
Whalen, Andrew
Ros Freixedes, Roger
Gorjanc, Gregor
Chen, Ching-Yi
Herring, William O.
Koning, Dirk‑Jan de
Hickey, John M.
author Johnsson, Martin
author_facet Johnsson, Martin
Whalen, Andrew
Ros Freixedes, Roger
Gorjanc, Gregor
Chen, Ching-Yi
Herring, William O.
Koning, Dirk‑Jan de
Hickey, John M.
author_role author
author2 Whalen, Andrew
Ros Freixedes, Roger
Gorjanc, Gregor
Chen, Ching-Yi
Herring, William O.
Koning, Dirk‑Jan de
Hickey, John M.
author2_role author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Porcs
Genètica animal
Genètica veterinària
topic Porcs
Genètica animal
Genètica veterinària
description 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.
publishDate 2021
dc.date.none.fl_str_mv 2021
2021
2021
2021
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv https://doi.org/10.1186/s12711-021-00643-0
http://hdl.handle.net/10459.1/71630
http://hdl.handle.net/10459.1/71630
url https://doi.org/10.1186/s12711-021-00643-0
http://hdl.handle.net/10459.1/71630
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Reproducció del document publicat a: https://doi.org/10.1186/s12711-021-00643-0
Genetics Selection Evolution, 2021, vol. 53, article number 54
dc.rights.none.fl_str_mv cc-by (c) Johnsson, Martin et al., 2021
cc-by (c) Johnsson et al., 2021
info:eu-repo/semantics/openAccess
http://creativecommons.org/licenses/by/3.0/es
rights_invalid_str_mv cc-by (c) Johnsson, Martin et al., 2021
cc-by (c) Johnsson et al., 2021
http://creativecommons.org/licenses/by/3.0/es
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv BMC (part of Springer Nature)
publisher.none.fl_str_mv BMC (part of Springer Nature)
dc.source.none.fl_str_mv reponame:Recercat. Dipósit de la Recerca de Catalunya
instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str Recercat. Dipósit de la Recerca de Catalunya
collection Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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