Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattle
Autor(a) principal: | |
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Data de Publicação: | 2021 |
Outros Autores: | , , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1016/j.ygeno.2021.02.021 http://hdl.handle.net/11449/208515 |
Resumo: | We conducted analysis to estimate genetic parameters and to identify genomic regions and candidate genes affecting direct and maternal effects of preweaning calf mortality (PWM) in Nellore cattle. Phenotypic records of 67,196 animals, and 8443 genotypes for 410,936 SNPs were used. Analysis were performed through the weighted single-step GBLUP approach and considering a threshold animal model via Bayesian Inference. Direct and maternal heritability estimates were of 0.2143 ± 0.0348 and 0.0137 ± 0.0066, respectively. The top 10 genomic regions accounted for 13.61 and 14.23% of the direct and maternal additive genetic variances and harbored a total of 63 and 91 positional candidate genes, respectively. Two overlapping regions on BTA2 were identified for both direct and maternal effects. Candidate genes are involved in biological mechanisms i.e. embryogenesis, immune response, feto-maternal communication, circadian rhythm, hormone alterations, myometrium adaptation, and milk secretion, which are critical for the successful calf growth and survival during preweaning period. |
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Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattleBeef cattleComplex traitsGene interaction networkHeritabilitySingle-step GWASSurvivalWe conducted analysis to estimate genetic parameters and to identify genomic regions and candidate genes affecting direct and maternal effects of preweaning calf mortality (PWM) in Nellore cattle. Phenotypic records of 67,196 animals, and 8443 genotypes for 410,936 SNPs were used. Analysis were performed through the weighted single-step GBLUP approach and considering a threshold animal model via Bayesian Inference. Direct and maternal heritability estimates were of 0.2143 ± 0.0348 and 0.0137 ± 0.0066, respectively. The top 10 genomic regions accounted for 13.61 and 14.23% of the direct and maternal additive genetic variances and harbored a total of 63 and 91 positional candidate genes, respectively. Two overlapping regions on BTA2 were identified for both direct and maternal effects. Candidate genes are involved in biological mechanisms i.e. embryogenesis, immune response, feto-maternal communication, circadian rhythm, hormone alterations, myometrium adaptation, and milk secretion, which are critical for the successful calf growth and survival during preweaning period.Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)São Paulo State University (Unesp) College of Agricultural and Veterinarian Sciences, Via de Acesso Professor Paulo Donato Castelane Castellane S/N - Vila IndustrialNational Council for Science and Technological Development (CNPq)São Paulo State University (Unesp) College of Agricultural and Veterinarian Sciences, Via de Acesso Professor Paulo Donato Castelane Castellane S/N - Vila IndustrialFAPESP: #2017/10630-2FAPESP: #2018/20026-8CAPES: 001Universidade Estadual Paulista (Unesp)National Council for Science and Technological Development (CNPq)Marín-Garzón, N. A. [UNESP]Magalhães, A. F.B. [UNESP]Schmidt, P. I. [UNESP]Serna, M. [UNESP]Fonseca, L. F.S. [UNESP]Salatta, B. M. [UNESP]Frezarim, G. B. [UNESP]Fernandes-Júnior, G. A. [UNESP]Bresolin, T. [UNESP]Carvalheiro, R. [UNESP]Albuquerque, L. G. [UNESP]2021-06-25T11:13:19Z2021-06-25T11:13:19Z2021-05-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article1386-1395http://dx.doi.org/10.1016/j.ygeno.2021.02.021Genomics, v. 113, n. 3, p. 1386-1395, 2021.1089-86460888-7543http://hdl.handle.net/11449/20851510.1016/j.ygeno.2021.02.0212-s2.0-85102876241Scopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengGenomicsinfo:eu-repo/semantics/openAccess2024-06-07T18:43:35Zoai:repositorio.unesp.br:11449/208515Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T20:33:26.794753Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattle |
title |
Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattle |
spellingShingle |
Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattle Marín-Garzón, N. A. [UNESP] Beef cattle Complex traits Gene interaction network Heritability Single-step GWAS Survival |
title_short |
Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattle |
title_full |
Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattle |
title_fullStr |
Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattle |
title_full_unstemmed |
Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattle |
title_sort |
Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattle |
author |
Marín-Garzón, N. A. [UNESP] |
author_facet |
Marín-Garzón, N. A. [UNESP] Magalhães, A. F.B. [UNESP] Schmidt, P. I. [UNESP] Serna, M. [UNESP] Fonseca, L. F.S. [UNESP] Salatta, B. M. [UNESP] Frezarim, G. B. [UNESP] Fernandes-Júnior, G. A. [UNESP] Bresolin, T. [UNESP] Carvalheiro, R. [UNESP] Albuquerque, L. G. [UNESP] |
author_role |
author |
author2 |
Magalhães, A. F.B. [UNESP] Schmidt, P. I. [UNESP] Serna, M. [UNESP] Fonseca, L. F.S. [UNESP] Salatta, B. M. [UNESP] Frezarim, G. B. [UNESP] Fernandes-Júnior, G. A. [UNESP] Bresolin, T. [UNESP] Carvalheiro, R. [UNESP] Albuquerque, L. G. [UNESP] |
author2_role |
author author author author author author author author author author |
dc.contributor.none.fl_str_mv |
Universidade Estadual Paulista (Unesp) National Council for Science and Technological Development (CNPq) |
dc.contributor.author.fl_str_mv |
Marín-Garzón, N. A. [UNESP] Magalhães, A. F.B. [UNESP] Schmidt, P. I. [UNESP] Serna, M. [UNESP] Fonseca, L. F.S. [UNESP] Salatta, B. M. [UNESP] Frezarim, G. B. [UNESP] Fernandes-Júnior, G. A. [UNESP] Bresolin, T. [UNESP] Carvalheiro, R. [UNESP] Albuquerque, L. G. [UNESP] |
dc.subject.por.fl_str_mv |
Beef cattle Complex traits Gene interaction network Heritability Single-step GWAS Survival |
topic |
Beef cattle Complex traits Gene interaction network Heritability Single-step GWAS Survival |
description |
We conducted analysis to estimate genetic parameters and to identify genomic regions and candidate genes affecting direct and maternal effects of preweaning calf mortality (PWM) in Nellore cattle. Phenotypic records of 67,196 animals, and 8443 genotypes for 410,936 SNPs were used. Analysis were performed through the weighted single-step GBLUP approach and considering a threshold animal model via Bayesian Inference. Direct and maternal heritability estimates were of 0.2143 ± 0.0348 and 0.0137 ± 0.0066, respectively. The top 10 genomic regions accounted for 13.61 and 14.23% of the direct and maternal additive genetic variances and harbored a total of 63 and 91 positional candidate genes, respectively. Two overlapping regions on BTA2 were identified for both direct and maternal effects. Candidate genes are involved in biological mechanisms i.e. embryogenesis, immune response, feto-maternal communication, circadian rhythm, hormone alterations, myometrium adaptation, and milk secretion, which are critical for the successful calf growth and survival during preweaning period. |
publishDate |
2021 |
dc.date.none.fl_str_mv |
2021-06-25T11:13:19Z 2021-06-25T11:13:19Z 2021-05-01 |
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/10.1016/j.ygeno.2021.02.021 Genomics, v. 113, n. 3, p. 1386-1395, 2021. 1089-8646 0888-7543 http://hdl.handle.net/11449/208515 10.1016/j.ygeno.2021.02.021 2-s2.0-85102876241 |
url |
http://dx.doi.org/10.1016/j.ygeno.2021.02.021 http://hdl.handle.net/11449/208515 |
identifier_str_mv |
Genomics, v. 113, n. 3, p. 1386-1395, 2021. 1089-8646 0888-7543 10.1016/j.ygeno.2021.02.021 2-s2.0-85102876241 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Genomics |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
1386-1395 |
dc.source.none.fl_str_mv |
Scopus 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_ |
1808129220286611456 |