Genome-wide association study identifies genetic variants underlying footrot in Portuguese Merino sheep

Background Ovine footrot caused by Dichelobacter nodosus (D. nodosus) is a contagious disease with serious economic and welfare impacts in sheep production systems worldwide. A better understanding of the host genetic architecture regarding footrot resistance/susceptibility is crucial to develop dis...

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Autores: Gaspar, Daniel, Ginja, Catarina, Carolino, Nuno, Leão, Célia, Monteiro, Helena, Tábuas, Lino, Branco, Sandra, Padre, Ludovina, Caetano, Pedro, Romão, Ricardo, Matos, Claudino, Ramos, António Marcos, Bettencourt, Elisa, Usié Chimenos, Anabel
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2024
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:10459.1/469059
Acceso en línea:https://doi.org/10.1186/s12864-023-09844-x
https://hdl.handle.net/10459.1/469059
http://hdl.handle.net/10459.1/469059
Access Level:acceso abierto
Palabra clave:Footrot
Genome-wide association study
Ovis aries
Portuguese Merino
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spelling Genome-wide association study identifies genetic variants underlying footrot in Portuguese Merino sheepGaspar, DanielGinja, CatarinaCarolino, NunoLeão, CéliaMonteiro, HelenaTábuas, LinoBranco, SandraPadre, LudovinaCaetano, PedroRomão, RicardoMatos, ClaudinoRamos, António MarcosBettencourt, ElisaUsié Chimenos, AnabelFootrotGenome-wide association studyOvis ariesPortuguese MerinoBackground Ovine footrot caused by Dichelobacter nodosus (D. nodosus) is a contagious disease with serious economic and welfare impacts in sheep production systems worldwide. A better understanding of the host genetic architecture regarding footrot resistance/susceptibility is crucial to develop disease control strategies that efficiently reduce infection and its severity. A genome-wide association study was performed using a customized SNP array (47,779 SNPs in total) to identify genetic variants associated to footrot resistance/susceptibility in two Portuguese native breeds, i.e. Merino Branco and Merino Preto, and a population of crossbred animals. A cohort of 1375 sheep sampled across 17 flocks, located in the Alentejo region (southern Portugal), was included in the analyses. Results Phenotypes were scored from 0 (healthy) to 5 (severe footrot) based on visual inspection of feet lesions, following the Modified Egerton System. Using a linear mixed model approach, three SNPs located on chromosome 24 reached genome-wide significance after a Bonferroni correction (p < 0.05). Additionally, six genome-wide suggestive SNPs were identified each on chromosomes 2, 4, 7, 8, 9 and 15. The annotation and KEGG pathway analyses showed that these SNPs are located within regions of candidate genes such as the nonsense mediated mRNA decay associated PI3K related kinase (SMG1) (chromosome 24) and the RALY RNA binding protein like (RALYL) (chromosome 9), both involved in immunity, and the heparan sulfate proteoglycan 2 (HSPG2) (chromosome 2) and the Thrombospodin 1 (THBS1) (chromosome 7) implicated in tissue repair and wound healing processes. Conclusion This is the first attempt to identify molecular markers associated with footrot in Portuguese Merino sheep. These findings provide relevant information on a likely genetic association underlying footrot resistance/susceptibility and the potential candidate genes affecting this trait. Genetic selection strategies assisted on the information obtained from this study could enhance Merino sheep-breeding programs, in combination with farm management strategies, for a more effective and sustainable long-term solution for footrot control.BMC2024info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttps://doi.org/10.1186/s12864-023-09844-xhttps://hdl.handle.net/10459.1/469059http://hdl.handle.net/10459.1/469059reponame: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/s12864-023-09844-xBMC Genomics, 2024, vol. 25, 100cc-by, (c) Daniel Gaspar et al., 2024Attribution 4.0 Internationalinfo:eu-repo/semantics/openAccesshttp://creativecommons.org/licenses/by/4.0/oai:recercat.cat:10459.1/4690592026-05-29T05:05:01Z
dc.title.none.fl_str_mv Genome-wide association study identifies genetic variants underlying footrot in Portuguese Merino sheep
title Genome-wide association study identifies genetic variants underlying footrot in Portuguese Merino sheep
spellingShingle Genome-wide association study identifies genetic variants underlying footrot in Portuguese Merino sheep
Gaspar, Daniel
Footrot
Genome-wide association study
Ovis aries
Portuguese Merino
title_short Genome-wide association study identifies genetic variants underlying footrot in Portuguese Merino sheep
title_full Genome-wide association study identifies genetic variants underlying footrot in Portuguese Merino sheep
title_fullStr Genome-wide association study identifies genetic variants underlying footrot in Portuguese Merino sheep
title_full_unstemmed Genome-wide association study identifies genetic variants underlying footrot in Portuguese Merino sheep
title_sort Genome-wide association study identifies genetic variants underlying footrot in Portuguese Merino sheep
dc.creator.none.fl_str_mv Gaspar, Daniel
Ginja, Catarina
Carolino, Nuno
Leão, Célia
Monteiro, Helena
Tábuas, Lino
Branco, Sandra
Padre, Ludovina
Caetano, Pedro
Romão, Ricardo
Matos, Claudino
Ramos, António Marcos
Bettencourt, Elisa
Usié Chimenos, Anabel
author Gaspar, Daniel
author_facet Gaspar, Daniel
Ginja, Catarina
Carolino, Nuno
Leão, Célia
Monteiro, Helena
Tábuas, Lino
Branco, Sandra
Padre, Ludovina
Caetano, Pedro
Romão, Ricardo
Matos, Claudino
Ramos, António Marcos
Bettencourt, Elisa
Usié Chimenos, Anabel
author_role author
author2 Ginja, Catarina
Carolino, Nuno
Leão, Célia
Monteiro, Helena
Tábuas, Lino
Branco, Sandra
Padre, Ludovina
Caetano, Pedro
Romão, Ricardo
Matos, Claudino
Ramos, António Marcos
Bettencourt, Elisa
Usié Chimenos, Anabel
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Footrot
Genome-wide association study
Ovis aries
Portuguese Merino
topic Footrot
Genome-wide association study
Ovis aries
Portuguese Merino
description Background Ovine footrot caused by Dichelobacter nodosus (D. nodosus) is a contagious disease with serious economic and welfare impacts in sheep production systems worldwide. A better understanding of the host genetic architecture regarding footrot resistance/susceptibility is crucial to develop disease control strategies that efficiently reduce infection and its severity. A genome-wide association study was performed using a customized SNP array (47,779 SNPs in total) to identify genetic variants associated to footrot resistance/susceptibility in two Portuguese native breeds, i.e. Merino Branco and Merino Preto, and a population of crossbred animals. A cohort of 1375 sheep sampled across 17 flocks, located in the Alentejo region (southern Portugal), was included in the analyses. Results Phenotypes were scored from 0 (healthy) to 5 (severe footrot) based on visual inspection of feet lesions, following the Modified Egerton System. Using a linear mixed model approach, three SNPs located on chromosome 24 reached genome-wide significance after a Bonferroni correction (p < 0.05). Additionally, six genome-wide suggestive SNPs were identified each on chromosomes 2, 4, 7, 8, 9 and 15. The annotation and KEGG pathway analyses showed that these SNPs are located within regions of candidate genes such as the nonsense mediated mRNA decay associated PI3K related kinase (SMG1) (chromosome 24) and the RALY RNA binding protein like (RALYL) (chromosome 9), both involved in immunity, and the heparan sulfate proteoglycan 2 (HSPG2) (chromosome 2) and the Thrombospodin 1 (THBS1) (chromosome 7) implicated in tissue repair and wound healing processes. Conclusion This is the first attempt to identify molecular markers associated with footrot in Portuguese Merino sheep. These findings provide relevant information on a likely genetic association underlying footrot resistance/susceptibility and the potential candidate genes affecting this trait. Genetic selection strategies assisted on the information obtained from this study could enhance Merino sheep-breeding programs, in combination with farm management strategies, for a more effective and sustainable long-term solution for footrot control.
publishDate 2024
dc.date.none.fl_str_mv 2024
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/s12864-023-09844-x
https://hdl.handle.net/10459.1/469059
http://hdl.handle.net/10459.1/469059
url https://doi.org/10.1186/s12864-023-09844-x
https://hdl.handle.net/10459.1/469059
http://hdl.handle.net/10459.1/469059
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/s12864-023-09844-x
BMC Genomics, 2024, vol. 25, 100
dc.rights.none.fl_str_mv cc-by, (c) Daniel Gaspar et al., 2024
Attribution 4.0 International
info:eu-repo/semantics/openAccess
http://creativecommons.org/licenses/by/4.0/
rights_invalid_str_mv cc-by, (c) Daniel Gaspar et al., 2024
Attribution 4.0 International
http://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv BMC
publisher.none.fl_str_mv BMC
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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