A high throughput genotyping approach reveals distinctive autosomal genetic signatures for European and Near Eastern wild boar

The lack of a Near Eastern genetic signature in modern European porcine breeds indicates that, although domestic pigs from the Fertile Crescent entered Europe during the Neolithic, they were completely replaced by their European counterparts in a short window of time. Whilst the absence of such gene...

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Authors: Manunza, Arianna, Zidi, Ali|||0000-0002-2314-4336, Yeghoyan, Seryiozha, Bâlteanu, Valentin Adrian, Carsai, Teodora Crina, Scherbakov, Oleg, Ramírez, Óscar, Eghbalsaied, Shahin|||0000-0002-9030-8679, Castelló Farré, Anna|||0000-0001-8497-6251, Mercadé Carceller, Anna|||0000-0002-4714-3565, Amills i Eras, Marcel|||0000-0002-8999-0770
Format: article
Publication Date:2013
Country:España
Institution:Universitat Autònoma de Barcelona
Repository:Dipòsit Digital de Documents de la UAB
Language:English
OAI Identifier:oai:ddd.uab.cat:108779
Online Access:https://ddd.uab.cat/record/108779
https://dx.doi.org/urn:doi:10.1371/journal.pone.0055891
Access Level:Open access
Keyword:Senglars
Genètica
Jabalís
Wild boars
Genetics
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spelling A high throughput genotyping approach reveals distinctive autosomal genetic signatures for European and Near Eastern wild boarManunza, AriannaZidi, Ali|||0000-0002-2314-4336Yeghoyan, SeryiozhaBâlteanu, Valentin AdrianCarsai, Teodora CrinaScherbakov, OlegRamírez, ÓscarEghbalsaied, Shahin|||0000-0002-9030-8679Castelló Farré, Anna|||0000-0001-8497-6251Mercadé Carceller, Anna|||0000-0002-4714-3565Amills i Eras, Marcel|||0000-0002-8999-0770SenglarsGenèticaJabalísWild boarsGeneticsThe lack of a Near Eastern genetic signature in modern European porcine breeds indicates that, although domestic pigs from the Fertile Crescent entered Europe during the Neolithic, they were completely replaced by their European counterparts in a short window of time. Whilst the absence of such genetic signature has been convincingly demonstrated at the mitochondrial level, variation at the autosomal genomes of European and Near Eastern Sus scrofa has not been compared yet. Herewith, we have explored the genetic relationships among 43 wild boar from Europe (N = 21), Near East (N = 19) and Korea (N = 3), and 40 Iberian (N = 16), Canarian (N = 4) and Mangalitza (N = 20) pigs by using a high throughput SNP genotyping platform. After data filtering, 37,167 autosomal SNPs were used to perform population genetics analyses. A multidimensional scaling plot based on genome-wide identity-by-state pairwise distances inferred with PLINK showed that Near Eastern and European wild boar populations are genetically differentiated. Maximum likelihood trees built with TreeMix supported this conclusion i.e. an early population split between Near Eastern and European Sus scrofa was observed. Moreover, analysis of the data with Structure evidenced that the sampled Iberian, Canarian and Mangalitza pigs did not carry any autosomal signature compatible with a Near Eastern ancestry, a finding that agrees well with previous mitochondrial studies. 22013-01-0120132013-01-01Articlehttp://purl.org/coar/resource_type/c_6501VoRhttp://purl.org/coar/version/c_970fb48d4fbd8a85info:eu-repo/semantics/articleapplication/pdfhttps://ddd.uab.cat/record/108779https://dx.doi.org/urn:doi:10.1371/journal.pone.0055891reponame:Dipòsit Digital de Documents de la UABinstname:Universitat Autònoma de BarcelonaInglésengMinisterio de Ciencia e Innovación https://doi.org/10.13039/501100004837 AGL2010-22208-C02-02Ministerio de Educación y Ciencia https://doi.org/10.13039/501100004837 CSD2007-00036open accesshttp://purl.org/coar/access_right/c_abf2Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.https://creativecommons.org/licenses/by/2.0/info:eu-repo/semantics/openAccessoai:ddd.uab.cat:1087792026-06-06T12:50:31Z
dc.title.none.fl_str_mv A high throughput genotyping approach reveals distinctive autosomal genetic signatures for European and Near Eastern wild boar
title A high throughput genotyping approach reveals distinctive autosomal genetic signatures for European and Near Eastern wild boar
spellingShingle A high throughput genotyping approach reveals distinctive autosomal genetic signatures for European and Near Eastern wild boar
Manunza, Arianna
Senglars
Genètica
Jabalís
Wild boars
Genetics
title_short A high throughput genotyping approach reveals distinctive autosomal genetic signatures for European and Near Eastern wild boar
title_full A high throughput genotyping approach reveals distinctive autosomal genetic signatures for European and Near Eastern wild boar
title_fullStr A high throughput genotyping approach reveals distinctive autosomal genetic signatures for European and Near Eastern wild boar
title_full_unstemmed A high throughput genotyping approach reveals distinctive autosomal genetic signatures for European and Near Eastern wild boar
title_sort A high throughput genotyping approach reveals distinctive autosomal genetic signatures for European and Near Eastern wild boar
dc.creator.none.fl_str_mv Manunza, Arianna
Zidi, Ali|||0000-0002-2314-4336
Yeghoyan, Seryiozha
Bâlteanu, Valentin Adrian
Carsai, Teodora Crina
Scherbakov, Oleg
Ramírez, Óscar
Eghbalsaied, Shahin|||0000-0002-9030-8679
Castelló Farré, Anna|||0000-0001-8497-6251
Mercadé Carceller, Anna|||0000-0002-4714-3565
Amills i Eras, Marcel|||0000-0002-8999-0770
author Manunza, Arianna
author_facet Manunza, Arianna
Zidi, Ali|||0000-0002-2314-4336
Yeghoyan, Seryiozha
Bâlteanu, Valentin Adrian
Carsai, Teodora Crina
Scherbakov, Oleg
Ramírez, Óscar
Eghbalsaied, Shahin|||0000-0002-9030-8679
Castelló Farré, Anna|||0000-0001-8497-6251
Mercadé Carceller, Anna|||0000-0002-4714-3565
Amills i Eras, Marcel|||0000-0002-8999-0770
author_role author
author2 Zidi, Ali|||0000-0002-2314-4336
Yeghoyan, Seryiozha
Bâlteanu, Valentin Adrian
Carsai, Teodora Crina
Scherbakov, Oleg
Ramírez, Óscar
Eghbalsaied, Shahin|||0000-0002-9030-8679
Castelló Farré, Anna|||0000-0001-8497-6251
Mercadé Carceller, Anna|||0000-0002-4714-3565
Amills i Eras, Marcel|||0000-0002-8999-0770
author2_role author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Senglars
Genètica
Jabalís
Wild boars
Genetics
topic Senglars
Genètica
Jabalís
Wild boars
Genetics
description The lack of a Near Eastern genetic signature in modern European porcine breeds indicates that, although domestic pigs from the Fertile Crescent entered Europe during the Neolithic, they were completely replaced by their European counterparts in a short window of time. Whilst the absence of such genetic signature has been convincingly demonstrated at the mitochondrial level, variation at the autosomal genomes of European and Near Eastern Sus scrofa has not been compared yet. Herewith, we have explored the genetic relationships among 43 wild boar from Europe (N = 21), Near East (N = 19) and Korea (N = 3), and 40 Iberian (N = 16), Canarian (N = 4) and Mangalitza (N = 20) pigs by using a high throughput SNP genotyping platform. After data filtering, 37,167 autosomal SNPs were used to perform population genetics analyses. A multidimensional scaling plot based on genome-wide identity-by-state pairwise distances inferred with PLINK showed that Near Eastern and European wild boar populations are genetically differentiated. Maximum likelihood trees built with TreeMix supported this conclusion i.e. an early population split between Near Eastern and European Sus scrofa was observed. Moreover, analysis of the data with Structure evidenced that the sampled Iberian, Canarian and Mangalitza pigs did not carry any autosomal signature compatible with a Near Eastern ancestry, a finding that agrees well with previous mitochondrial studies.
publishDate 2013
dc.date.none.fl_str_mv 2
2013-01-01
2013
2013-01-01
dc.type.none.fl_str_mv Article
http://purl.org/coar/resource_type/c_6501
VoR
http://purl.org/coar/version/c_970fb48d4fbd8a85
dc.type.openaire.fl_str_mv info:eu-repo/semantics/article
format article
dc.identifier.none.fl_str_mv https://ddd.uab.cat/record/108779
https://dx.doi.org/urn:doi:10.1371/journal.pone.0055891
url https://ddd.uab.cat/record/108779
https://dx.doi.org/urn:doi:10.1371/journal.pone.0055891
dc.language.none.fl_str_mv Inglés
eng
language_invalid_str_mv Inglés
language eng
dc.relation.none.fl_str_mv Ministerio de Ciencia e Innovación https://doi.org/10.13039/501100004837 AGL2010-22208-C02-02
Ministerio de Educación y Ciencia https://doi.org/10.13039/501100004837 CSD2007-00036
dc.rights.none.fl_str_mv open access
http://purl.org/coar/access_right/c_abf2
https://creativecommons.org/licenses/by/2.0/
dc.rights.openaire.fl_str_mv info:eu-repo/semantics/openAccess
rights_invalid_str_mv open access
http://purl.org/coar/access_right/c_abf2
https://creativecommons.org/licenses/by/2.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.source.none.fl_str_mv reponame:Dipòsit Digital de Documents de la UAB
instname:Universitat Autònoma de Barcelona
instname_str Universitat Autònoma de Barcelona
reponame_str Dipòsit Digital de Documents de la UAB
collection Dipòsit Digital de Documents de la UAB
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15.301603

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