Detecting the footprint of selection on the genomes of Murciano-Granadina goats
Artificial selection is one of the major forces modifying the genetic composition of livestock populations. Identifying genes under selection could be useful to elucidate their impact on phenotypic variation. We aimed to identify genomic regions targeted by selection for dairy and pigmentation trait...
| Autores: | , , , , , , , , , |
|---|---|
| Tipo de recurso: | artículo |
| Fecha de publicación: | 2021 |
| País: | España |
| Institución: | Universitat Autònoma de Barcelona |
| Repositorio: | Dipòsit Digital de Documents de la UAB |
| Idioma: | inglés |
| OAI Identifier: | oai:ddd.uab.cat:248306 |
| Acceso en línea: | https://ddd.uab.cat/record/248306 https://dx.doi.org/urn:doi:10.1111/age.13113 |
| Access Level: | acceso abierto |
| Palabra clave: | Casein Coat color Ihs test MC1R Selective sweeps |
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Detecting the footprint of selection on the genomes of Murciano-Granadina goatsGuan, Dailu|||0000-0001-8800-3158Martinez, Amparo|||0000-0002-6944-0501Luigi Sierra, Maria Gracia|||0000-0002-6414-0550Delgado Bermejo, Juan Vicente|||0000-0003-1657-8838Landi, Vincenzo|||0000-0003-1385-8439Castelló Farré, Anna|||0000-0001-8497-6251Fernández Álvarez, Javier|||0000-0003-0450-5869Such i Martí, Francesc Xavier|||0000-0002-9712-4477Jordana i Vidal, Jordi|||0000-0002-7789-2989Amills i Eras, Marcel|||0000-0002-8999-0770CaseinCoat colorIhs testMC1RSelective sweepsArtificial selection is one of the major forces modifying the genetic composition of livestock populations. Identifying genes under selection could be useful to elucidate their impact on phenotypic variation. We aimed to identify genomic regions targeted by selection for dairy and pigmentation traits in Murciano-Granadina goats. Performance of a selection scan based on the integrated haplotype score test in a population of 1183 Murciano-Granadina goats resulted in the identification of 77 candidate genomic regions/SNPs. The most significant selective sweeps mapped to chromosomes 1 (69.86 Mb), 4 (41.80-49.95 Mb), 11 (65.74 Mb), 12 (31.24 and 52.51 Mb), 17 (34.76-37.67 Mb), 22 (31.75 Mb), and 26 (26.69-31.05 Mb). By using previously generated RNA-Seq data, we built a catalogue of 6414 genes that are differentially expressed across goat lactation (i.e. 78 days post-partum, early lactation; 216 days post-partum, late lactation; 285 days post-partum, dry period). Interestingly, 183 of these genes mapped to selective sweeps and several of them display functions related with lipid, protein, and carbohydrate metabolism, insulin signaling, cell proliferation, as well as mammary development and involution. Of particular interest are the CSN3 and CSN1S2 genes, which encode two major milk proteins. Additionally, we found three pigmentation genes (GLI3, MC1R, and MITF) co-localizing with selective sweeps. Performance of a genome-wide association study and Sanger sequencing and TaqMan genotyping experiments revealed that the c.801C. 22021-01-0120212021-01-01Articlehttp://purl.org/coar/resource_type/c_6501VoRhttp://purl.org/coar/version/c_970fb48d4fbd8a85info:eu-repo/semantics/articleapplication/pdfhttps://ddd.uab.cat/record/248306https://dx.doi.org/urn:doi:10.1111/age.13113reponame:Dipòsit Digital de Documents de la UABinstname:Universitat Autònoma de BarcelonaInglésengopen 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/4.0/info:eu-repo/semantics/openAccessoai:ddd.uab.cat:2483062026-06-06T12:50:31Z |
| dc.title.none.fl_str_mv |
Detecting the footprint of selection on the genomes of Murciano-Granadina goats |
| title |
Detecting the footprint of selection on the genomes of Murciano-Granadina goats |
| spellingShingle |
Detecting the footprint of selection on the genomes of Murciano-Granadina goats Guan, Dailu|||0000-0001-8800-3158 Casein Coat color Ihs test MC1R Selective sweeps |
| title_short |
Detecting the footprint of selection on the genomes of Murciano-Granadina goats |
| title_full |
Detecting the footprint of selection on the genomes of Murciano-Granadina goats |
| title_fullStr |
Detecting the footprint of selection on the genomes of Murciano-Granadina goats |
| title_full_unstemmed |
Detecting the footprint of selection on the genomes of Murciano-Granadina goats |
| title_sort |
Detecting the footprint of selection on the genomes of Murciano-Granadina goats |
| dc.creator.none.fl_str_mv |
Guan, Dailu|||0000-0001-8800-3158 Martinez, Amparo|||0000-0002-6944-0501 Luigi Sierra, Maria Gracia|||0000-0002-6414-0550 Delgado Bermejo, Juan Vicente|||0000-0003-1657-8838 Landi, Vincenzo|||0000-0003-1385-8439 Castelló Farré, Anna|||0000-0001-8497-6251 Fernández Álvarez, Javier|||0000-0003-0450-5869 Such i Martí, Francesc Xavier|||0000-0002-9712-4477 Jordana i Vidal, Jordi|||0000-0002-7789-2989 Amills i Eras, Marcel|||0000-0002-8999-0770 |
| author |
Guan, Dailu|||0000-0001-8800-3158 |
| author_facet |
Guan, Dailu|||0000-0001-8800-3158 Martinez, Amparo|||0000-0002-6944-0501 Luigi Sierra, Maria Gracia|||0000-0002-6414-0550 Delgado Bermejo, Juan Vicente|||0000-0003-1657-8838 Landi, Vincenzo|||0000-0003-1385-8439 Castelló Farré, Anna|||0000-0001-8497-6251 Fernández Álvarez, Javier|||0000-0003-0450-5869 Such i Martí, Francesc Xavier|||0000-0002-9712-4477 Jordana i Vidal, Jordi|||0000-0002-7789-2989 Amills i Eras, Marcel|||0000-0002-8999-0770 |
| author_role |
author |
| author2 |
Martinez, Amparo|||0000-0002-6944-0501 Luigi Sierra, Maria Gracia|||0000-0002-6414-0550 Delgado Bermejo, Juan Vicente|||0000-0003-1657-8838 Landi, Vincenzo|||0000-0003-1385-8439 Castelló Farré, Anna|||0000-0001-8497-6251 Fernández Álvarez, Javier|||0000-0003-0450-5869 Such i Martí, Francesc Xavier|||0000-0002-9712-4477 Jordana i Vidal, Jordi|||0000-0002-7789-2989 Amills i Eras, Marcel|||0000-0002-8999-0770 |
| author2_role |
author author author author author author author author author |
| dc.subject.none.fl_str_mv |
Casein Coat color Ihs test MC1R Selective sweeps |
| topic |
Casein Coat color Ihs test MC1R Selective sweeps |
| description |
Artificial selection is one of the major forces modifying the genetic composition of livestock populations. Identifying genes under selection could be useful to elucidate their impact on phenotypic variation. We aimed to identify genomic regions targeted by selection for dairy and pigmentation traits in Murciano-Granadina goats. Performance of a selection scan based on the integrated haplotype score test in a population of 1183 Murciano-Granadina goats resulted in the identification of 77 candidate genomic regions/SNPs. The most significant selective sweeps mapped to chromosomes 1 (69.86 Mb), 4 (41.80-49.95 Mb), 11 (65.74 Mb), 12 (31.24 and 52.51 Mb), 17 (34.76-37.67 Mb), 22 (31.75 Mb), and 26 (26.69-31.05 Mb). By using previously generated RNA-Seq data, we built a catalogue of 6414 genes that are differentially expressed across goat lactation (i.e. 78 days post-partum, early lactation; 216 days post-partum, late lactation; 285 days post-partum, dry period). Interestingly, 183 of these genes mapped to selective sweeps and several of them display functions related with lipid, protein, and carbohydrate metabolism, insulin signaling, cell proliferation, as well as mammary development and involution. Of particular interest are the CSN3 and CSN1S2 genes, which encode two major milk proteins. Additionally, we found three pigmentation genes (GLI3, MC1R, and MITF) co-localizing with selective sweeps. Performance of a genome-wide association study and Sanger sequencing and TaqMan genotyping experiments revealed that the c.801C. |
| publishDate |
2021 |
| dc.date.none.fl_str_mv |
2 2021-01-01 2021 2021-01-01 |
| 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/248306 https://dx.doi.org/urn:doi:10.1111/age.13113 |
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https://ddd.uab.cat/record/248306 https://dx.doi.org/urn:doi:10.1111/age.13113 |
| dc.language.none.fl_str_mv |
Inglés eng |
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Inglés |
| language |
eng |
| dc.rights.none.fl_str_mv |
open access http://purl.org/coar/access_right/c_abf2 https://creativecommons.org/licenses/by/4.0/ |
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info:eu-repo/semantics/openAccess |
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open access http://purl.org/coar/access_right/c_abf2 https://creativecommons.org/licenses/by/4.0/ |
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openAccess |
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application/pdf |
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reponame:Dipòsit Digital de Documents de la UAB instname:Universitat Autònoma de Barcelona |
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