Linkage disequilibrium and effective population size in Gir cattle selected for yearling weight
Autor(a) principal: | |
---|---|
Data de Publicação: | 2019 |
Outros Autores: | , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1111/rda.13559 http://hdl.handle.net/11449/194895 |
Resumo: | Linkage disequilibrium (LD) plays an important role in genomic selection and mapping of quantitative trait loci (QTL). This study investigated the pattern of LD and effective population size (N-e) in Gir cattle selected for yearling weight. For this purpose, 173 animals with imputed genotypes (from 18 animals genotyped with the Illumina BovineHD BeadChip and 155 animals genotyped with the Bovine LDv4 panel) were analysed. The LD was evaluated at distances of 25-50 kb, 50-100 kb, 100-500 kb and 0.5-1 Mb. The N-e was estimated based on 5 past generations. The r(2) values (a measure of LD) were, respectively, .35, .29, .18 and .032 for the distances evaluated. The LD estimates decreased with increasing distance of SNP pairs and LD persisted up to a distance of 100 kb (r(2) = .29). The N-e was greater in generations 4 and 5 (24 and 30 animals, respectively) and declined drastically after the last generation (12 animals). The results showed high levels of LD and low N-e, which were probably due to the loss of genetic variability as a consequence of the structure of the Gir population studied. |
id |
UNSP_67ac6d83a044e339198aa6590a7d722c |
---|---|
oai_identifier_str |
oai:repositorio.unesp.br:11449/194895 |
network_acronym_str |
UNSP |
network_name_str |
Repositório Institucional da UNESP |
repository_id_str |
2946 |
spelling |
Linkage disequilibrium and effective population size in Gir cattle selected for yearling weightBos indicusgenetic variabilitylinkage disequilibriumLinkage disequilibrium (LD) plays an important role in genomic selection and mapping of quantitative trait loci (QTL). This study investigated the pattern of LD and effective population size (N-e) in Gir cattle selected for yearling weight. For this purpose, 173 animals with imputed genotypes (from 18 animals genotyped with the Illumina BovineHD BeadChip and 155 animals genotyped with the Bovine LDv4 panel) were analysed. The LD was evaluated at distances of 25-50 kb, 50-100 kb, 100-500 kb and 0.5-1 Mb. The N-e was estimated based on 5 past generations. The r(2) values (a measure of LD) were, respectively, .35, .29, .18 and .032 for the distances evaluated. The LD estimates decreased with increasing distance of SNP pairs and LD persisted up to a distance of 100 kb (r(2) = .29). The N-e was greater in generations 4 and 5 (24 and 30 animals, respectively) and declined drastically after the last generation (12 animals). The results showed high levels of LD and low N-e, which were probably due to the loss of genetic variability as a consequence of the structure of the Gir population studied.Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Agence Universitaire de la Francophonie (PRISA)Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)Sao Paulo State Univ, Fac Agr & Vet Sci, Genet Anim Breeding, Jaboticabal, SP, BrazilSao Paulo State Univ, Fac Vet Med & Anim Sci, Dept Breeding & Anim Nutr, Botucatu, SP, BrazilInst Anim Sci, Ctr Beef Cattle, Sertaozinho, BrazilFed Univ Grande Dourados, Fac Agr Sci, Dourados, BrazilSao Paulo State Univ, Fac Agr & Vet Sci, Genet Anim Breeding, Jaboticabal, SP, BrazilSao Paulo State Univ, Fac Vet Med & Anim Sci, Dept Breeding & Anim Nutr, Botucatu, SP, BrazilFAPESP: 2015/06686-7Agence Universitaire de la Francophonie (PRISA): 1140/2018CNPq: 304047/2017-1Wiley-BlackwellUniversidade Estadual Paulista (Unesp)Inst Anim SciFed Univ Grande DouradosToro Ospina, Alejandra M. [UNESP]Maiorano, Amanda Marchi [UNESP]Curi, Rogerio A. [UNESP]Pereira, Guilherme L. [UNESP]Zerlotti-Mercadante, Maria EugeniaSantos Goncalves Cyrillo, Joslaine Noely dosAspilcueta-Borquis, Rusbel R.Silva, Josineudson A. de V. [UNESP]2020-12-10T16:57:59Z2020-12-10T16:57:59Z2019-10-13info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article8http://dx.doi.org/10.1111/rda.13559Reproduction In Domestic Animals. Hoboken: Wiley, 8 p., 2019.0936-6768http://hdl.handle.net/11449/19489510.1111/rda.13559WOS:000489825200001Web of Sciencereponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengReproduction In Domestic Animalsinfo:eu-repo/semantics/openAccess2021-10-23T00:00:20Zoai:repositorio.unesp.br:11449/194895Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T19:40:44.840648Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Linkage disequilibrium and effective population size in Gir cattle selected for yearling weight |
title |
Linkage disequilibrium and effective population size in Gir cattle selected for yearling weight |
spellingShingle |
Linkage disequilibrium and effective population size in Gir cattle selected for yearling weight Toro Ospina, Alejandra M. [UNESP] Bos indicus genetic variability linkage disequilibrium |
title_short |
Linkage disequilibrium and effective population size in Gir cattle selected for yearling weight |
title_full |
Linkage disequilibrium and effective population size in Gir cattle selected for yearling weight |
title_fullStr |
Linkage disequilibrium and effective population size in Gir cattle selected for yearling weight |
title_full_unstemmed |
Linkage disequilibrium and effective population size in Gir cattle selected for yearling weight |
title_sort |
Linkage disequilibrium and effective population size in Gir cattle selected for yearling weight |
author |
Toro Ospina, Alejandra M. [UNESP] |
author_facet |
Toro Ospina, Alejandra M. [UNESP] Maiorano, Amanda Marchi [UNESP] Curi, Rogerio A. [UNESP] Pereira, Guilherme L. [UNESP] Zerlotti-Mercadante, Maria Eugenia Santos Goncalves Cyrillo, Joslaine Noely dos Aspilcueta-Borquis, Rusbel R. Silva, Josineudson A. de V. [UNESP] |
author_role |
author |
author2 |
Maiorano, Amanda Marchi [UNESP] Curi, Rogerio A. [UNESP] Pereira, Guilherme L. [UNESP] Zerlotti-Mercadante, Maria Eugenia Santos Goncalves Cyrillo, Joslaine Noely dos Aspilcueta-Borquis, Rusbel R. Silva, Josineudson A. de V. [UNESP] |
author2_role |
author author author author author author author |
dc.contributor.none.fl_str_mv |
Universidade Estadual Paulista (Unesp) Inst Anim Sci Fed Univ Grande Dourados |
dc.contributor.author.fl_str_mv |
Toro Ospina, Alejandra M. [UNESP] Maiorano, Amanda Marchi [UNESP] Curi, Rogerio A. [UNESP] Pereira, Guilherme L. [UNESP] Zerlotti-Mercadante, Maria Eugenia Santos Goncalves Cyrillo, Joslaine Noely dos Aspilcueta-Borquis, Rusbel R. Silva, Josineudson A. de V. [UNESP] |
dc.subject.por.fl_str_mv |
Bos indicus genetic variability linkage disequilibrium |
topic |
Bos indicus genetic variability linkage disequilibrium |
description |
Linkage disequilibrium (LD) plays an important role in genomic selection and mapping of quantitative trait loci (QTL). This study investigated the pattern of LD and effective population size (N-e) in Gir cattle selected for yearling weight. For this purpose, 173 animals with imputed genotypes (from 18 animals genotyped with the Illumina BovineHD BeadChip and 155 animals genotyped with the Bovine LDv4 panel) were analysed. The LD was evaluated at distances of 25-50 kb, 50-100 kb, 100-500 kb and 0.5-1 Mb. The N-e was estimated based on 5 past generations. The r(2) values (a measure of LD) were, respectively, .35, .29, .18 and .032 for the distances evaluated. The LD estimates decreased with increasing distance of SNP pairs and LD persisted up to a distance of 100 kb (r(2) = .29). The N-e was greater in generations 4 and 5 (24 and 30 animals, respectively) and declined drastically after the last generation (12 animals). The results showed high levels of LD and low N-e, which were probably due to the loss of genetic variability as a consequence of the structure of the Gir population studied. |
publishDate |
2019 |
dc.date.none.fl_str_mv |
2019-10-13 2020-12-10T16:57:59Z 2020-12-10T16:57:59Z |
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/rda.13559 Reproduction In Domestic Animals. Hoboken: Wiley, 8 p., 2019. 0936-6768 http://hdl.handle.net/11449/194895 10.1111/rda.13559 WOS:000489825200001 |
url |
http://dx.doi.org/10.1111/rda.13559 http://hdl.handle.net/11449/194895 |
identifier_str_mv |
Reproduction In Domestic Animals. Hoboken: Wiley, 8 p., 2019. 0936-6768 10.1111/rda.13559 WOS:000489825200001 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Reproduction In Domestic Animals |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
8 |
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 |
|
_version_ |
1808129106034819072 |