Genome-wide scan reveals genomic regions and candidate genes underlying direct and maternal effects of preweaning calf mortality in Nellore cattle

Detalhes bibliográficos
Autor(a) principal: Marín-Garzón, N. A. [UNESP]
Data de Publicação: 2021
Outros Autores: 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]
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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spelling 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/openAccess2021-10-23T19:02:13Zoai:repositorio.unesp.br:11449/208515Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462021-10-23T19:02:13Repositório 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
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