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Registro Completo |
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Biblioteca(s): |
Embrapa Gado de Leite. |
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Data corrente: |
06/02/2017 |
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Data da última atualização: |
30/01/2023 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
CHEN, Z.; HAGEN, D. E.; WANG, J.; ELSIK, C. G.; JI, T.; SIQUEIRA, L. G. B.; HANSEN, P. J.; RIVERA, R. M. |
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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. |
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Título: |
Global assessment of imprinted gene expression in the bovine conceptus by next generation sequencing. |
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Ano de publicação: |
2016 |
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Fonte/Imprenta: |
Epigenetics, v. 11, n. 7, p. 501-516, 2016. |
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Idioma: |
Português |
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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 |
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Palavras-Chave: |
A-to-I RNA editing; Allele-specific gene expression; Next generation sequencing; X chromosome inactivation. |
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Thesaurus Nal: |
genomic imprinting. |
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Categoria do assunto: |
X Pesquisa, Tecnologia e Engenharia |
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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
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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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Registro original: |
Embrapa Gado de Leite (CNPGL) |
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| Registros recuperados : 20 | |
| 2. |  | SIQUEIRA, L. G. B.; HANSEN, P. J. Postnatal consequences of assisted reproductive technologies in cattle. Animal Reproduction, v. 14, n. 3, p. 490-496, 2017. Animal Reproduction, v. 14, n. 3, p. 490-496, 2017.
Edição dos proceedings do Annual Meeting of the Brazilian Embryo Tecnology Society, Cabo de Santo Agostinho, 2017.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Gado de Leite. |
|    |
| 5. | | TRIBULO, P.; SIQUEIRA, L. G. B.; HANSEN, P. J. Endometrial expression of genes involved in growth factor, cytoline, hormone, and WNT signaling during the early estrous cycle of the cow In: ANNUAL MEETING OF THE SOCIETY FOR THE STUDY OF REPRODUCTION, 48., 2015, San Juan, Puerto Rico, USA. Evolution of sex: abstracts. San Juan: SSR, 2015. P. 113.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Gado de Leite. |
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| 11. | | LI, Y.; TRÍBULO, P.; BAKHTIARIZADEH, M. R.; SIQUEIRA, L. G. B.; JI, T.; RIVERA, R. M.; HANSEN, P. J. Conditions of embryo culture from days 5 to 7 of development alter the DNA methylome of the bovine fetus at day 86 of gestation. Journal of Assisted Reproduction and Genetics, v. 37, p. 417-426, 2020.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: B - 1 |
| Biblioteca(s): Embrapa Gado de Leite. |
|  |
| 12. | | AMARAL, T. F.; GRAZIA, J. G. V. de; MARTINHAO, L A. G.; DE COL, F.; SIQUEIRA, L. G. B.; VIANA, J. H. M.; HANSEN, P. J. Actions of CSF2 and DKK1 on bovine embryo development and pregnancy outcomes are affected by composition of embryo culture medium. Scientific Reports, v. 12, 7503, 2022.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Gado de Leite; Embrapa Recursos Genéticos e Biotecnologia. |
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| 13. | | SIQUEIRA, L. G. B.; TRIBULO, P.; DENICOL, A. C.; ORTEGA, M. S.; NEGRON-PEREZ, V.M.; KANNAMPUZHA-FRANCIS, J. P.; HANSEN, P. J. Consequences of in vitro production of embryos with or whithout colony-stimulating factor 2 in culture medium on morphometric features of the bovine conceptus at day 86 of gestation In: ANNUAL CONFERENCE OF THE INTERNATIONAL EMBRYO TRANSFER SOCIETY, 2016, Louisville. Reproduction, fertility and development: proceedings. Louisville: [s.n.], 2016.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Gado de Leite. |
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| 14. | | CHEN, Z.; HAGEN, D. E.; WANG, J.; ELSIK, C. G.; JI, T.; SIQUEIRA, L. G. B.; HANSEN, P. J.; RIVERA, R. M. Global assessment of imprinted gene expression in the bovine conceptus by next generation sequencing. Epigenetics, v. 11, n. 7, p. 501-516, 2016.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Gado de Leite. |
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| 15. | | PILLAI, V. V.; KEI, T. G.; GURUNG, S.; DAS, M.; SIQUEIRA, L. G. B.; CHEONG, S. H.; HANSEN, P. J.; SELVARAJ, V. RhoA/ROCK signaling antagonizes bovine trophoblast stem cell self-renewal and regulates preimplantation embryo size and differentiation. Development, v. 149, n. 7, dev200115, 2022.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Gado de Leite. |
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| 16. | | ORTEGA, M. S.; WOHLGEMUTH, S.; TRIBULO, P.; SIQUEIRA, L. G. B.; NULL, D. J.; COLE, J. B.; SILVA, M. V. G. B.; HANSEN, P. J. A single nucleotide polymorphism in COQ9 affects mitochondrial and ovarian function and fertility in Holstein cows. Biology of Reproduction, v. 96, n. 3, p. 652-663, 2017.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Gado de Leite. |
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| 17. | | SIQUEIRA, L. G. B.; TRIBULO, P.; CHEN, Z.; DENICOL, A. C.; ORTEGA, M. S.; NEGRON-PEREZ, V.M.; KANNAMPUZHA-FRANCIS, J. P.; POHLER, K. G.; RIVERA, R. M.; HANSEN, P. J. Colony-stimulating factor 2 acts from days 5 to 7 of development to modify programming of the bovine conceptus at day 86 of gestation. Biology of Reproduction, v. 96, n. 4, p. 743-757, 2017.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Gado de Leite. |
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| 18. | | PILLAI, V. V.; SIQUEIRA, L. G. B.; DAS, M.; KEI, T. G.; TU, L. N.; HERREN, A. W.; PHINNEY, B. S.; CHEONG, S. H.; HANSEN, P. J.; SELVARAJ, V. Physiological profile of undifferentiated bovine blastocyst-derived trophoblasts. Biology Open, v. 8, n. 5, article bio037937, 2019.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 2 |
| Biblioteca(s): Embrapa Gado de Leite. |
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| 19. | | AMARAL, T. F.; GRÁZIA, J. G. V.; GONELLA-DIAZA, A. M.; MARTINHÃO, L. A. G.; HEREDIA, D.; MELO, G. D.; POHLER, K. G.; ESTRADA-CORTÉS, E.; DIKMEN, S.; SOSA, F.; JENSEN, L. M.; SANG, L.; SIQUEIRA, L. G. B.; VIANA, J. H. M.; HANSEN, P. J. Actions of DKK1 on the bovine embryo during the morula-to-blastocyst stage of development on pregnancy outcomes and placental hormone secretion after embryo transfer. Reproduction, Fertility and Development, v. 34, n. 2, p. 279, 2022. Edição dos abstracts da Annual Conference of the International Embryo Transfer Society, 48., Savannah, Geórgia, 2022.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 20. | | AMARAL, T. F.; GRÁZIA, J. G. V.; GONELLA-DIAZA, A. M.; MARTINHÃO, L. A. G.; HEREDIA, D.; MELO, G. D.; POHLER, K. G.; ESTRADA-CORTÉS, E.; DIKMEN, S.; SOSA, F.; JENSEN, L. M.; SANG, L.; SIQUEIRA, L. G. B.; VIANA, J. H. M.; HANSEN, P. J. Actions of DKK1 on the bovine embryo during the morula-to-blastocyst stage of development on pregnancy outcomes and placental hormone secretion after embryo transfer. Reproduction, Fertility and Development, v. 34, n. 2, p. 279, 2022. Edição dos abstracts da Annual Conference of the International Embryo Transfer Society, 48., Savannah, Geórgia, 2022.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Gado de Leite. |
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| Registros recuperados : 20 | |
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| Nenhum registro encontrado para a expressão de busca informada. |
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