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Registro Completo |
Biblioteca(s): |
Embrapa Gado de Leite. |
Data corrente: |
06/02/2017 |
Data da última atualização: |
30/01/2023 |
Tipo da produção científica: |
Artigo em Periódico Indexado |
Autoria: |
CHEN, Z.; HAGEN, D. E.; WANG, J.; ELSIK, C. G.; JI, T.; SIQUEIRA, L. G. B.; HANSEN, P. J.; RIVERA, R. M. |
Afiliação: |
Zhiyuan Chen, University of Missouri, Columbia, MO, USA; Darren E. Hagen, University of Missouri, Columbia, MO, USA; Juanbin Wang, University of Missouri, Columbia, MO, USA; Christine G. Elsik, University of Missouri, Columbia, MO, USA; Tieming Ji, University of Missouri, Columbia, MO, USA; LUIZ GUSTAVO BRUNO SIQUEIRA, CNPGL; Peter J. Hansen, University of Florida, Gainesville, FL, USA; Rocio M. Rivera, University of Missouri, Columbia, MO. |
Título: |
Global assessment of imprinted gene expression in the bovine conceptus by next generation sequencing. |
Ano de publicação: |
2016 |
Fonte/Imprenta: |
Epigenetics, v. 11, n. 7, p. 501-516, 2016. |
Idioma: |
Português |
Conteúdo: |
Abstract Genomic imprinting is an epigenetic mechanism that leads to parental-allele-specific gene expression. Approximately 150 imprinted genes have been identified in humans and mice but less than 30 have been described as imprinted in cattle. For the purpose of de novo identification of imprinted genes in bovine, we determined global monoallelic gene expression in brain, skeletal muscle, liver, kidney and placenta of day ∼105 Bos taurus indicus × Bos taurus taurus F1 conceptuses using RNA sequencing. To accomplish this, we developed a bioinformatics pipeline to identify parent-specific single nucleotide polymorphism alleles after filtering adenosine to inosine (A-to-I) RNA editing sites. We identified 53 genes subject to monoallelic expression. Twenty three are genes known to be imprinted in the cow and an additional 7 have previously been characterized as imprinted in human and/or mouse that have not been reported as imprinted in cattle. Of the remaining 23 genes, we found that 10 are uncharacterized or unannotated transcripts located in known imprinted clusters, whereas the other 13 genes are distributed throughout the bovine genome and are not close to any known imprinted clusters. To exclude potential cis-eQTL effects on allele expression, we corroborated the parental specificity of monoallelic expression in day 86 Bos taurus taurus × Bos taurus taurus conceptuses and identified 8 novel bovine imprinted genes. Further, we identified 671 candidate A-to-I RNA editing sites and describe random X-inactivation in day 15 bovine extraembryonic membranes. Our results expand the imprinted gene list in bovine and demonstrate that monoallelic gene expression can be the result of cis-eQTL effects. MenosAbstract Genomic imprinting is an epigenetic mechanism that leads to parental-allele-specific gene expression. Approximately 150 imprinted genes have been identified in humans and mice but less than 30 have been described as imprinted in cattle. For the purpose of de novo identification of imprinted genes in bovine, we determined global monoallelic gene expression in brain, skeletal muscle, liver, kidney and placenta of day ∼105 Bos taurus indicus × Bos taurus taurus F1 conceptuses using RNA sequencing. To accomplish this, we developed a bioinformatics pipeline to identify parent-specific single nucleotide polymorphism alleles after filtering adenosine to inosine (A-to-I) RNA editing sites. We identified 53 genes subject to monoallelic expression. Twenty three are genes known to be imprinted in the cow and an additional 7 have previously been characterized as imprinted in human and/or mouse that have not been reported as imprinted in cattle. Of the remaining 23 genes, we found that 10 are uncharacterized or unannotated transcripts located in known imprinted clusters, whereas the other 13 genes are distributed throughout the bovine genome and are not close to any known imprinted clusters. To exclude potential cis-eQTL effects on allele expression, we corroborated the parental specificity of monoallelic expression in day 86 Bos taurus taurus × Bos taurus taurus conceptuses and identified 8 novel bovine imprinted genes. Further, we identified 671 candidate A-to-I RNA edit... Mostrar Tudo |
Palavras-Chave: |
A-to-I RNA editing; Allele-specific gene expression; Next generation sequencing; X chromosome inactivation. |
Thesaurus Nal: |
genomic imprinting. |
Categoria do assunto: |
X Pesquisa, Tecnologia e Engenharia |
URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/154835/1/Cnpgl-2016-Epigenetics-Global.pdf
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Marc: |
LEADER 02519naa a2200265 a 4500 001 2062831 005 2023-01-30 008 2016 bl uuuu u00u1 u #d 100 1 $aCHEN, Z. 245 $aGlobal assessment of imprinted gene expression in the bovine conceptus by next generation sequencing.$h[electronic resource] 260 $c2016 520 $aAbstract Genomic imprinting is an epigenetic mechanism that leads to parental-allele-specific gene expression. Approximately 150 imprinted genes have been identified in humans and mice but less than 30 have been described as imprinted in cattle. For the purpose of de novo identification of imprinted genes in bovine, we determined global monoallelic gene expression in brain, skeletal muscle, liver, kidney and placenta of day ∼105 Bos taurus indicus × Bos taurus taurus F1 conceptuses using RNA sequencing. To accomplish this, we developed a bioinformatics pipeline to identify parent-specific single nucleotide polymorphism alleles after filtering adenosine to inosine (A-to-I) RNA editing sites. We identified 53 genes subject to monoallelic expression. Twenty three are genes known to be imprinted in the cow and an additional 7 have previously been characterized as imprinted in human and/or mouse that have not been reported as imprinted in cattle. Of the remaining 23 genes, we found that 10 are uncharacterized or unannotated transcripts located in known imprinted clusters, whereas the other 13 genes are distributed throughout the bovine genome and are not close to any known imprinted clusters. To exclude potential cis-eQTL effects on allele expression, we corroborated the parental specificity of monoallelic expression in day 86 Bos taurus taurus × Bos taurus taurus conceptuses and identified 8 novel bovine imprinted genes. Further, we identified 671 candidate A-to-I RNA editing sites and describe random X-inactivation in day 15 bovine extraembryonic membranes. Our results expand the imprinted gene list in bovine and demonstrate that monoallelic gene expression can be the result of cis-eQTL effects. 650 $agenomic imprinting 653 $aA-to-I RNA editing 653 $aAllele-specific gene expression 653 $aNext generation sequencing 653 $aX chromosome inactivation 700 1 $aHAGEN, D. E. 700 1 $aWANG, J. 700 1 $aELSIK, C. G. 700 1 $aJI, T. 700 1 $aSIQUEIRA, L. G. B. 700 1 $aHANSEN, P. J. 700 1 $aRIVERA, R. M. 773 $tEpigenetics$gv. 11, n. 7, p. 501-516, 2016.
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Embrapa Gado de Leite (CNPGL) |
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2. | | PEDRI, Z. C.; LOZANO, L. M. dos S.; HELM, C. V. Estudo da obtenção de um biocompósito de biomassa de pupunha (Bactris gasipaes) e micélio de Lentinula edodes. In: EVENTO DE INICIAÇÃO CIENTÍFICA DA EMBRAPA FLORESTAS, 12., 2013, Colombo. Anais. Colombo: Embrapa Florestas, 2013. (Embrapa Florestas. Documentos, 253). Editores técnicos: Marcílio José Thomazini, Elenice Fritzsons, Patrícia Raquel Silva, Guilherme Schnell e Schuhli, Denise Jeton Cardoso, Luziane Franciscon. EVINCI. Resumos.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Florestas. |
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3. | | TAVARES, L. B. B.; PEDRI, Z. C.; HELM, C. V.; MAGALHAES, W. L. E. Produção de biocompósito com macrofungo e resíduo de palmeira. In: SIMPÓSIO INTERNACIONAL SOBRE COGUMELOS NO BRASIL, 7.; SIMPÓSIO NACIONAL SOBRE COGUMELOS COMESTÍVEIS, 6., 2013, Manaus. Anais. Brasília, DF: Embrapa Recursos Genéticos e Biotecnologia, 2013. p. 171-176.Tipo: Artigo em Anais de Congresso |
Biblioteca(s): Embrapa Florestas. |
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4. | | LOZANO, L. M. dos S.; HELM, C. V.; PEDRI, Z. C. Modelo de processo de produção de micélio de Lentinula edodes em biomassa florestal para obtenção de embalagem biodegradável. In: EVENTO DE INICIAÇÃO CIENTÍFICA DA EMBRAPA FLORESTAS, 11., 2012, Colombo. Anais. Colombo: Embrapa Florestas, 2012. (Embrapa Florestas. Documentos, 240). Editores técnicos: Marcílio José Thomazini, Elenice Fritzsons, Patrícia Raquel Silva, Guilherme Schnell e Schuhli, Denise Jeton Cardoso, Luziane Franciscon. EVINCI. Resumos.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Florestas. |
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5. | | PEDRI, Z. C.; TAVARES, L. B. B.; LOZANO, L. M. dos S.; HELM, C. V.; MAGALHAES, W. L. E. Estudo do crescimento micelial de Lentinula edodes para desenvolvimento de embalagem biodegradável. In: MOSTRA INTEGRADA DE ENSINO, PESQUISA E EXTENSÃO, 6., 2012, Blumenau. Anais. Blumenau: FURB, 2012. Resumo. Disponível online. MIPE.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Florestas. |
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7. | | PEDRI, Z. C.; LOZANO, L. M. S.; HERMANN, K. L.; HELM, C. V.; PERALTA, R. M.; TAVARES, L. B. B. Influence of nitrogen sources on the enzymatic activity and grown by Lentinula edodes in biomass Eucalyptus benthamii. Brazilian Journal of Biology, São Carlos, v. 75, n. 4, p. 940-947, Nov. 2015.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 2 |
Biblioteca(s): Embrapa Florestas. |
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8. | | PEDRI, Z. C.; TAVARES, L. B. B.; LOZANO, L. M. dos S.; HERMANN, K. L.; VALLE, R. de C. S. C.; HELM, C. V.; MAGALHAES, W. L. E. Efeito de fatores de processo na atividade holocelulolítica e no crescimento micelial de Lentinula edodes. In: MOSTRA INTEGRADA DE ENSINO, PESQUISA E EXTENSÃO, 7., 2013, Blumenau. Anais. Blumenau: FURB, 2013. Resumo. Disponível online. MIPE.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Florestas. |
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Registros recuperados : 8 | |
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