Genome-wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle

Detalhes bibliográficos
Autor(a) principal: Mota, R.R.
Data de Publicação: 2017
Outros Autores: Guimarães, S.E.F., Fortes, M.R.S., Hayes, B., Silva, F.F., Verardo, L.L., Kelly, M.J., Campos, C.F. de, Guimarães, J.D., Wenceslau, R.R., Penitente-Filho, J.M., Garcia, J.F., Moore, S.
Tipo de documento: Artigo
Idioma: eng
Título da fonte: LOCUS Repositório Institucional da UFV
Texto Completo: http://dx.doi.org/10.1111/jbg.12299
http://www.locus.ufv.br/handle/123456789/16476
Resumo: We performed a genome-wide mapping for the age at first calving (AFC) with the goal of annotating candidate genes that regulate fertility in Nellore cattle. Phenotypic data from 762 cows and 777k SNP genotypes from 2,992 bulls and cows were used. Single nucleotide polymorphism (SNP) effects based on the single-step GBLUP methodology were blocked into adjacent windows of 1 Megabase (Mb) to explain the genetic variance. SNP windows explaining more than 0.40% of the AFC genetic variance were identified on chromosomes 2, 8, 9, 14, 16 and 17. From these windows, we identified 123 coding protein genes that were used to build gene networks. From the association study and derived gene networks, putative candidate genes (e.g., PAPPA, PREP, FER1L6, TPR, NMNAT1, ACAD10, PCMTD1, CRH, OPKR1, NPBWR1 and NCOA2) and transcription factors (TF) (STAT1, STAT3, RELA, E2F1 and EGR1) were strongly associated with female fertility (e.g., negative regulation of luteinizing hormone secretion, folliculogenesis and establishment of uterine receptivity). Evidence suggests that AFC inheritance is complex and controlled by multiple loci across the genome. As several windows explaining higher proportion of the genetic variance were identified on chromosome 14, further studies investigating the interaction across haplotypes to better understand the molecular architecture behind AFC in Nellore cattle should be undertaken.
id UFV_b69feb93ff68b8d47c223c44f5638862
oai_identifier_str oai:locus.ufv.br:123456789/16476
network_acronym_str UFV
network_name_str LOCUS Repositório Institucional da UFV
repository_id_str 2145
spelling Genome-wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattleBeef cattleGene functionSingle-stepWe performed a genome-wide mapping for the age at first calving (AFC) with the goal of annotating candidate genes that regulate fertility in Nellore cattle. Phenotypic data from 762 cows and 777k SNP genotypes from 2,992 bulls and cows were used. Single nucleotide polymorphism (SNP) effects based on the single-step GBLUP methodology were blocked into adjacent windows of 1 Megabase (Mb) to explain the genetic variance. SNP windows explaining more than 0.40% of the AFC genetic variance were identified on chromosomes 2, 8, 9, 14, 16 and 17. From these windows, we identified 123 coding protein genes that were used to build gene networks. From the association study and derived gene networks, putative candidate genes (e.g., PAPPA, PREP, FER1L6, TPR, NMNAT1, ACAD10, PCMTD1, CRH, OPKR1, NPBWR1 and NCOA2) and transcription factors (TF) (STAT1, STAT3, RELA, E2F1 and EGR1) were strongly associated with female fertility (e.g., negative regulation of luteinizing hormone secretion, folliculogenesis and establishment of uterine receptivity). Evidence suggests that AFC inheritance is complex and controlled by multiple loci across the genome. As several windows explaining higher proportion of the genetic variance were identified on chromosome 14, further studies investigating the interaction across haplotypes to better understand the molecular architecture behind AFC in Nellore cattle should be undertaken.Journal of Animal Breeding and Genetics2018-01-18T13:24:17Z2018-01-18T13:24:17Z2017-10-09info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articlepdfapplication/pdf1439-0388http://dx.doi.org/10.1111/jbg.12299http://www.locus.ufv.br/handle/123456789/16476eng134(6), p. 484-492, Oct. 2017Mota, R.R.Guimarães, S.E.F.Fortes, M.R.S.Hayes, B.Silva, F.F.Verardo, L.L.Kelly, M.J.Campos, C.F. deGuimarães, J.D.Wenceslau, R.R.Penitente-Filho, J.M.Garcia, J.F.Moore, S.info:eu-repo/semantics/openAccessreponame:LOCUS Repositório Institucional da UFVinstname:Universidade Federal de Viçosa (UFV)instacron:UFV2024-07-12T07:00:20Zoai:locus.ufv.br:123456789/16476Repositório InstitucionalPUBhttps://www.locus.ufv.br/oai/requestfabiojreis@ufv.bropendoar:21452024-07-12T07:00:20LOCUS Repositório Institucional da UFV - Universidade Federal de Viçosa (UFV)false
dc.title.none.fl_str_mv Genome-wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle
title Genome-wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle
spellingShingle Genome-wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle
Mota, R.R.
Beef cattle
Gene function
Single-step
title_short Genome-wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle
title_full Genome-wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle
title_fullStr Genome-wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle
title_full_unstemmed Genome-wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle
title_sort Genome-wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle
author Mota, R.R.
author_facet Mota, R.R.
Guimarães, S.E.F.
Fortes, M.R.S.
Hayes, B.
Silva, F.F.
Verardo, L.L.
Kelly, M.J.
Campos, C.F. de
Guimarães, J.D.
Wenceslau, R.R.
Penitente-Filho, J.M.
Garcia, J.F.
Moore, S.
author_role author
author2 Guimarães, S.E.F.
Fortes, M.R.S.
Hayes, B.
Silva, F.F.
Verardo, L.L.
Kelly, M.J.
Campos, C.F. de
Guimarães, J.D.
Wenceslau, R.R.
Penitente-Filho, J.M.
Garcia, J.F.
Moore, S.
author2_role author
author
author
author
author
author
author
author
author
author
author
author
dc.contributor.author.fl_str_mv Mota, R.R.
Guimarães, S.E.F.
Fortes, M.R.S.
Hayes, B.
Silva, F.F.
Verardo, L.L.
Kelly, M.J.
Campos, C.F. de
Guimarães, J.D.
Wenceslau, R.R.
Penitente-Filho, J.M.
Garcia, J.F.
Moore, S.
dc.subject.por.fl_str_mv Beef cattle
Gene function
Single-step
topic Beef cattle
Gene function
Single-step
description We performed a genome-wide mapping for the age at first calving (AFC) with the goal of annotating candidate genes that regulate fertility in Nellore cattle. Phenotypic data from 762 cows and 777k SNP genotypes from 2,992 bulls and cows were used. Single nucleotide polymorphism (SNP) effects based on the single-step GBLUP methodology were blocked into adjacent windows of 1 Megabase (Mb) to explain the genetic variance. SNP windows explaining more than 0.40% of the AFC genetic variance were identified on chromosomes 2, 8, 9, 14, 16 and 17. From these windows, we identified 123 coding protein genes that were used to build gene networks. From the association study and derived gene networks, putative candidate genes (e.g., PAPPA, PREP, FER1L6, TPR, NMNAT1, ACAD10, PCMTD1, CRH, OPKR1, NPBWR1 and NCOA2) and transcription factors (TF) (STAT1, STAT3, RELA, E2F1 and EGR1) were strongly associated with female fertility (e.g., negative regulation of luteinizing hormone secretion, folliculogenesis and establishment of uterine receptivity). Evidence suggests that AFC inheritance is complex and controlled by multiple loci across the genome. As several windows explaining higher proportion of the genetic variance were identified on chromosome 14, further studies investigating the interaction across haplotypes to better understand the molecular architecture behind AFC in Nellore cattle should be undertaken.
publishDate 2017
dc.date.none.fl_str_mv 2017-10-09
2018-01-18T13:24:17Z
2018-01-18T13:24:17Z
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 1439-0388
http://dx.doi.org/10.1111/jbg.12299
http://www.locus.ufv.br/handle/123456789/16476
identifier_str_mv 1439-0388
url http://dx.doi.org/10.1111/jbg.12299
http://www.locus.ufv.br/handle/123456789/16476
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 134(6), p. 484-492, Oct. 2017
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv pdf
application/pdf
dc.publisher.none.fl_str_mv Journal of Animal Breeding and Genetics
publisher.none.fl_str_mv Journal of Animal Breeding and Genetics
dc.source.none.fl_str_mv reponame:LOCUS Repositório Institucional da UFV
instname:Universidade Federal de Viçosa (UFV)
instacron:UFV
instname_str Universidade Federal de Viçosa (UFV)
instacron_str UFV
institution UFV
reponame_str LOCUS Repositório Institucional da UFV
collection LOCUS Repositório Institucional da UFV
repository.name.fl_str_mv LOCUS Repositório Institucional da UFV - Universidade Federal de Viçosa (UFV)
repository.mail.fl_str_mv fabiojreis@ufv.br
_version_ 1817559889516429312