Please use this identifier to cite or link to this item: http://repositorio.unicamp.br/jspui/handle/REPOSIP/244016
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dc.contributor.CRUESPUNIVERSIDADE DE ESTADUAL DE CAMPINASpt_BR
dc.typeArtigo de periódicopt_BR
dc.titleGenomic Variants Revealed By Invariably Missing Genotypes In Nelore Cattlept_BR
dc.contributor.authorda Silvapt_BR
dc.contributor.authorJoaquim Manoel; Giachettopt_BR
dc.contributor.authorPoliana Fernanda; Campos da Silvapt_BR
dc.contributor.authorLuiz Otavio; Cintrapt_BR
dc.contributor.authorLeandro Carrijo; Paivapt_BR
dc.contributor.authorSamuel Rezende; Caetanopt_BR
dc.contributor.authorAlexandre Rodrigues; Beleza Yamagishipt_BR
dc.contributor.authorMichel Eduardopt_BR
unicamp.author.emailjoaquimmanoel@unemat.brpt_BR
unicamp.author[da Silva, Joaquim Manoel] Univ Estadual Campinas UNICAMP, Inst Biol, Programa Posgrad Genet & Biol Mol, Sao Paulo, Brazilpt_BR
unicamp.author.external[da Silva, Joaquim Manoel] Univ Estado Mato Grosso UNEMAT, Fac Ciencias Agr Biol & Sociais Aplicadas, Nova Xavantina, Mato Grosso, Brazilpt
unicamp.author.external[Giachetto, Poliana Fernandapt
unicamp.author.externalCintra, Leandro Carrijopt
unicamp.author.externalBeleza Yamagishi, Michel Eduardo] Embrapa Informat Agr, LMB, Sao Paulo, Brazilpt
unicamp.author.external[Campos da Silva, Luiz Otavio] Embrapa Gado Corte, Campo Grande, MS, Brazilpt
unicamp.author.external[Paiva, Samuel Rezende] Embrapa Secretaria Relacoes Int, Brasilia, DF, Brazilpt
unicamp.author.external[Caetano, Alexandre Rodrigues] Embrapa Recursos Genet & Biotecnol, Brasilia, DF, Brazilpt
dc.subjectBos-indicus Cattlept_BR
dc.subjectCopy Numberpt_BR
dc.subjectSkeletal-musclept_BR
dc.subjectSequencing Datapt_BR
dc.subjectMutationspt_BR
dc.subjectTauruspt_BR
dc.subjectPopulationspt_BR
dc.subjectExpressionpt_BR
dc.subjectDiversitypt_BR
dc.subjectDiscoverypt_BR
dc.description.abstractHigh density genotyping panels have been used in a wide range of applications. From population genetics to genome-wide association studies, this technology still offers the lowest cost and the most consistent solution for generating SNP data. However, in spite of the application, part of the generated data is always discarded from final datasets based on quality control criteria used to remove unreliable markers. Some discarded data consists of markers that failed to generate genotypes, labeled as missing genotypes. A subset of missing genotypes that occur in the whole population under study may be caused by technical issues but can also be explained by the presence of genomic variations that are in the vicinity of the assayed SNP and that prevent genotyping probes from annealing. The latter case may contain relevant information because these missing genotypes might be used to identify population-specific genomic variants. In order to assess which case is more prevalent, we used Illumina HD Bovine chip genotypes from 1,709 Nelore (Bos indicus) samples. We found 3,200 missing genotypes among the whole population. NGS re-sequencing data from 8 sires were used to verify the presence of genomic variations within their flanking regions in 81.56% of these missing genotypes. Furthermore, we discovered 3,300 novel SNPs/Indels, 31% of which are located in genes that may affect traits of importance for the genetic improvement of cattle production.en
dc.relation.ispartofPLOS ONEpt_BR
dc.publisher.countrySAN FRANCISCOpt_BR
dc.publisherPUBLIC LIBRARY SCIENCEpt_BR
dc.date.issued2015-AUGpt_BR
dc.identifier.citationGenomic Variants Revealed By Invariably Missing Genotypes In Nelore Cattle. Public Library Science, v. 10, p. AUG-2015.pt_BR
dc.language.isoenpt_BR
dc.description.volume10pt_BR
dc.description.issuenumber8pt_BR
dc.rightsabertopt_BR
dc.sourceWOSpt_BR
dc.identifier.issn1932-6203pt_BR
dc.identifier.wosidWOS:000359995500044pt_BR
dc.identifier.doi10.1371/journal.pone.0136035pt_BR
dc.identifier.urlhttp://journals.plos.org/plosone/article?id=10.1371/journal.pone.0136035pt_BR
dc.description.sponsorshipFundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)pt_BR
dc.description.sponsorshipEMBRAPA [02.10.06.009.00]pt_BR
dc.description.sponsorshipConselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)pt_BR
dc.description.sponsorship1Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)pt_BR
dc.description.sponsorship1Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)pt_BR
dc.description.sponsordocumentnumberFAPESP [2012/05002-9]pt
dc.description.sponsordocumentnumberCNPq [578592/2008-8]pt
dc.date.available2016-06-07T13:34:55Z-
dc.date.accessioned2016-06-07T13:34:55Z-
dc.description.provenanceMade available in DSpace on 2016-06-07T13:34:55Z (GMT). No. of bitstreams: 0 Previous issue date: 2015en
dc.identifier.urihttp://repositorio.unicamp.br/jspui/handle/REPOSIP/244016-
Appears in Collections:Unicamp - Artigos e Outros Documentos

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