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Registro Completo |
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Biblioteca(s): |
Embrapa Agricultura Digital; Embrapa Gado de Corte; Embrapa Recursos Genéticos e Biotecnologia. |
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Data corrente: |
26/11/2015 |
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Data da última atualização: |
29/03/2016 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
SILVA, J. M. da; GIACHETTO, P. F.; SILVA, L. O. C. da; CINTRA, L. C.; PAIVA, S. R.; CAETANO, A. R.; YAMAGISHI, M. E. B. |
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Afiliação: |
JOAQUIM MANOEL DA SILVA, Faculdade de Ciências Agrárias, Biológicas e Sociais Aplicadas, Universidade do Estado de Mato Grosso (UNEMAT), Nova Xavantina, Mato Grosso, Bra; POLIANA FERNANDA GIACHETTO, CNPTIA; LUIZ OTAVIO CAMPOS DA SILVA, CNPGC; LEANDRO CARRIJO CINTRA, CNPTIA; SAMUEL REZENDE PAIVA, SRI; ALEXANDRE RODRIGUES CAETANO, CENARGEN; MICHEL EDUARDO BELEZA YAMAGISHI, CNPTIA. |
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Título: |
Genomic Variants Revealed by Invariably Missing Genotypes in Nelore Cattle. |
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Ano de publicação: |
2015 |
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Fonte/Imprenta: |
PLoS ONE, v. 10, n. 8, p. 1-18, 2015 |
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Idioma: |
Inglês
Português |
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Conteúdo: |
High 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. |
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Palavras-Chave: |
Genotypes; Nelore; Polimorfismo de nucleotídeo único; Sequenciamento de DNA. |
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Thesagro: |
Bos Indicus; Gado de corte. |
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Thesaurus Nal: |
Cattle; Sequence analysis; Single nucleotide polymorphism. |
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Categoria do assunto: |
-- |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/134042/1/journal.pone.0136035.pdf
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/137040/1/Genomic-variants-Silva.pdf
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Marc: |
LEADER 02316naa a2200301 a 4500
001 2029638
005 2016-03-29
008 2015 bl uuuu u00u1 u #d
100 1 $aSILVA, J. M. da
245 $aGenomic Variants Revealed by Invariably Missing Genotypes in Nelore Cattle.$h[electronic resource]
260 $c2015
520 $aHigh 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.
650 $aCattle
650 $aSequence analysis
650 $aSingle nucleotide polymorphism
650 $aBos Indicus
650 $aGado de corte
653 $aGenotypes
653 $aNelore
653 $aPolimorfismo de nucleotídeo único
653 $aSequenciamento de DNA
700 1 $aGIACHETTO, P. F.
700 1 $aSILVA, L. O. C. da
700 1 $aCINTRA, L. C.
700 1 $aPAIVA, S. R.
700 1 $aCAETANO, A. R.
700 1 $aYAMAGISHI, M. E. B.
773 $tPLoS ONE$gv. 10, n. 8, p. 1-18, 2015
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Registro original: |
Embrapa Gado de Corte (CNPGC) |
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 | Acesso ao texto completo restrito à biblioteca da Embrapa Cerrados. Para informações adicionais entre em contato com cpac.biblioteca@embrapa.br. |
Registro Completo
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Biblioteca(s): |
Embrapa Cerrados. |
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Data corrente: |
05/05/2000 |
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Data da última atualização: |
05/05/2000 |
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Autoria: |
CORAZZA, E. J.; BROSSARD, M.; OLIVEIRA, A. F. |
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Título: |
Variabilidade quimica das camadas superficiais de solos do municipio de Unai (MG). |
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Ano de publicação: |
1999 |
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Fonte/Imprenta: |
In: CONGRESSO BRASILEIRO DE CIENCIA DO SOLO, 27., 1999, Brasilia, DF. [Ciencia do solo e qualidade de vida: anais]. [Planaltina: Embrapa Cerrados, 1999]. |
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Idioma: |
Português |
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Notas: |
Sessao de Posteres 9. Resumo. |
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Palavras-Chave: |
Brasil; Minas Gerais; Unai. |
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Thesagro: |
Cerrado; Química do Solo. |
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Thesaurus NAL: |
soil chemistry. |
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Categoria do assunto: |
-- |
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Marc: |
LEADER 00688nam a2200205 a 4500
001 1555194
005 2000-05-05
008 1999 bl uuuu 0 #d
100 1 $aCORAZZA, E. J.
245 $aVariabilidade quimica das camadas superficiais de solos do municipio de Unai (MG).
260 $aIn: CONGRESSO BRASILEIRO DE CIENCIA DO SOLO, 27., 1999, Brasilia, DF. [Ciencia do solo e qualidade de vida: anais]. [Planaltina: Embrapa Cerrados$c1999
500 $aSessao de Posteres 9. Resumo.
650 $asoil chemistry
650 $aCerrado
650 $aQuímica do Solo
653 $aBrasil
653 $aMinas Gerais
653 $aUnai
700 1 $aBROSSARD, M.
700 1 $aOLIVEIRA, A. F.
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Embrapa Cerrados (CPAC) |
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