Exome analysis and functional classification of identified variants in racing Quarter Horses
Autor(a) principal: | |
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Data de Publicação: | 2020 |
Outros Autores: | , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1111/age.12976 http://hdl.handle.net/11449/197095 |
Resumo: | The main objectives of this study were to identify and functionally classify SNPs and indels by exome sequencing of animals of the racing line of Quarter Horses. Based on the individual genomic estimated breeding values (GEBVs) for maximum speed index (SImax) obtained for 349 animals, two groups of 20 extreme animals were formed. Of these individuals, 20 animals with high GEBVs for SImax and 19 with low GEBVs for SImax had their exons and 5 ' and 3 ' UTRs sequenced. Considering SNPs and indels, 105 182 variants were identified in the expressed regions of the Quarter Horse genome. Of these, 72 166 variants were already known and 33 016 are new variants and were deposited in a database. The analysis of the set of gene variants significantly related (P-adjusted < 0.05) to extreme animals in conjunction with the predicted impact of the changes and the physiological role of protein product pointed to two candidate genes potentially related to racing performance:SLC3A1on ECA15 andCCN6on ECA10. |
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Repositório Institucional da UNESP |
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Exome analysis and functional classification of identified variants in racing Quarter Horsesequineindelmolecular markerSNPspeed indexThe main objectives of this study were to identify and functionally classify SNPs and indels by exome sequencing of animals of the racing line of Quarter Horses. Based on the individual genomic estimated breeding values (GEBVs) for maximum speed index (SImax) obtained for 349 animals, two groups of 20 extreme animals were formed. Of these individuals, 20 animals with high GEBVs for SImax and 19 with low GEBVs for SImax had their exons and 5 ' and 3 ' UTRs sequenced. Considering SNPs and indels, 105 182 variants were identified in the expressed regions of the Quarter Horse genome. Of these, 72 166 variants were already known and 33 016 are new variants and were deposited in a database. The analysis of the set of gene variants significantly related (P-adjusted < 0.05) to extreme animals in conjunction with the predicted impact of the changes and the physiological role of protein product pointed to two candidate genes potentially related to racing performance:SLC3A1on ECA15 andCCN6on ECA10.Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Sao Paulo State Univ, Coll Vet & Anim Sci, Dept Anim Breeding & Nutr, BR-18618970 Botucatu, SP, BrazilSao Paulo State Univ, Inst Biosci, Dept Parasitol, BR-18618970 Botucatu, SP, BrazilSao Paulo State Univ, Coll Vet & Anim Sci, Dept Anim Breeding & Nutr, BR-18618970 Botucatu, SP, BrazilSao Paulo State Univ, Inst Biosci, Dept Parasitol, BR-18618970 Botucatu, SP, BrazilFAPESP: 2014/20207-1Wiley-BlackwellUniversidade Estadual Paulista (Unesp)Curi, R. A. [UNESP]Pereira, G. L. [UNESP]Alvarez, M. V. N. [UNESP]Baldassini, W. A. [UNESP]Machado Neto, O. R. [UNESP]Chardulo, L. A. L. [UNESP]2020-12-10T20:05:59Z2020-12-10T20:05:59Z2020-07-21info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article6http://dx.doi.org/10.1111/age.12976Animal Genetics. Hoboken: Wiley, 6 p., 2020.0268-9146http://hdl.handle.net/11449/19709510.1111/age.12976WOS:000550664000001Web of Sciencereponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengAnimal Geneticsinfo:eu-repo/semantics/openAccess2024-09-06T18:55:24Zoai:repositorio.unesp.br:11449/197095Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestrepositoriounesp@unesp.bropendoar:29462024-09-06T18:55:24Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Exome analysis and functional classification of identified variants in racing Quarter Horses |
title |
Exome analysis and functional classification of identified variants in racing Quarter Horses |
spellingShingle |
Exome analysis and functional classification of identified variants in racing Quarter Horses Curi, R. A. [UNESP] equine indel molecular marker SNP speed index |
title_short |
Exome analysis and functional classification of identified variants in racing Quarter Horses |
title_full |
Exome analysis and functional classification of identified variants in racing Quarter Horses |
title_fullStr |
Exome analysis and functional classification of identified variants in racing Quarter Horses |
title_full_unstemmed |
Exome analysis and functional classification of identified variants in racing Quarter Horses |
title_sort |
Exome analysis and functional classification of identified variants in racing Quarter Horses |
author |
Curi, R. A. [UNESP] |
author_facet |
Curi, R. A. [UNESP] Pereira, G. L. [UNESP] Alvarez, M. V. N. [UNESP] Baldassini, W. A. [UNESP] Machado Neto, O. R. [UNESP] Chardulo, L. A. L. [UNESP] |
author_role |
author |
author2 |
Pereira, G. L. [UNESP] Alvarez, M. V. N. [UNESP] Baldassini, W. A. [UNESP] Machado Neto, O. R. [UNESP] Chardulo, L. A. L. [UNESP] |
author2_role |
author author author author author |
dc.contributor.none.fl_str_mv |
Universidade Estadual Paulista (Unesp) |
dc.contributor.author.fl_str_mv |
Curi, R. A. [UNESP] Pereira, G. L. [UNESP] Alvarez, M. V. N. [UNESP] Baldassini, W. A. [UNESP] Machado Neto, O. R. [UNESP] Chardulo, L. A. L. [UNESP] |
dc.subject.por.fl_str_mv |
equine indel molecular marker SNP speed index |
topic |
equine indel molecular marker SNP speed index |
description |
The main objectives of this study were to identify and functionally classify SNPs and indels by exome sequencing of animals of the racing line of Quarter Horses. Based on the individual genomic estimated breeding values (GEBVs) for maximum speed index (SImax) obtained for 349 animals, two groups of 20 extreme animals were formed. Of these individuals, 20 animals with high GEBVs for SImax and 19 with low GEBVs for SImax had their exons and 5 ' and 3 ' UTRs sequenced. Considering SNPs and indels, 105 182 variants were identified in the expressed regions of the Quarter Horse genome. Of these, 72 166 variants were already known and 33 016 are new variants and were deposited in a database. The analysis of the set of gene variants significantly related (P-adjusted < 0.05) to extreme animals in conjunction with the predicted impact of the changes and the physiological role of protein product pointed to two candidate genes potentially related to racing performance:SLC3A1on ECA15 andCCN6on ECA10. |
publishDate |
2020 |
dc.date.none.fl_str_mv |
2020-12-10T20:05:59Z 2020-12-10T20:05:59Z 2020-07-21 |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://dx.doi.org/10.1111/age.12976 Animal Genetics. Hoboken: Wiley, 6 p., 2020. 0268-9146 http://hdl.handle.net/11449/197095 10.1111/age.12976 WOS:000550664000001 |
url |
http://dx.doi.org/10.1111/age.12976 http://hdl.handle.net/11449/197095 |
identifier_str_mv |
Animal Genetics. Hoboken: Wiley, 6 p., 2020. 0268-9146 10.1111/age.12976 WOS:000550664000001 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Animal Genetics |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
6 |
dc.publisher.none.fl_str_mv |
Wiley-Blackwell |
publisher.none.fl_str_mv |
Wiley-Blackwell |
dc.source.none.fl_str_mv |
Web of Science reponame:Repositório Institucional da UNESP instname:Universidade Estadual Paulista (UNESP) instacron:UNESP |
instname_str |
Universidade Estadual Paulista (UNESP) |
instacron_str |
UNESP |
institution |
UNESP |
reponame_str |
Repositório Institucional da UNESP |
collection |
Repositório Institucional da UNESP |
repository.name.fl_str_mv |
Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP) |
repository.mail.fl_str_mv |
repositoriounesp@unesp.br |
_version_ |
1810021335205675008 |