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Registros recuperados : 78 | |
1. | | OLIVEIRA, G. B.; KAPPELER, B. G.; CESAR, A. S. M.; POLETI, M. D.; REGITANO, L. C. de A.; COUTINHO, L. L. Micrornas expression profile and functional enrichment of Longissimus Dorsi muscle in Nellore cattle. In: CONGRESSO BRASILEIRO DE GENÉTICA, 61., 2015, Águas de Lindóia. Anais...Águas de Lindóia: Sociedade Brasileira de Genética, 2015. Biblioteca(s): Embrapa Pecuária Sudeste. |
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2. | | SILVEIRA, J. C. da; FERRONATO, G. de A.; OLIVEIRA, J. F. C. de; HENKES, L. E.; BENAVIDES, M. V.; CESAR, A. S. M. Marcadores moleculares aplicados à seleção animal. In: GONÇALVES, P. B. D.; FIGUEIREDO, J. R. de; GASPERIN, B. G. (ed.). Biotécnicas aplicadas à reprodução animal e à humana. 3. ed. Rio de Janeiro: Roca, 2021. p. 323-340. Biblioteca(s): Embrapa Pecuária Sul. |
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3. | | KAPPELER, B. I. G.; REGITANO, L. C. de A.; POLETI, M. D.; CESAR, A. S. M.; MOREIRA, G. C. M.; GASPARIN, G.; COUTINHO, L. L. MiRNAs differentially expressed in skeletal muscle of animals with divergent estimated breeding values for beef tenderness. Molecular Biology, v. 20, n. 1, p. 2-11, 2019. Biblioteca(s): Embrapa Pecuária Sudeste. |
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4. | | COUTINHO, L. L.; MOROSINI, N. S.; CESAR, A. S. M.; POLETI, M. D.; REGITANO, L. C. de A.; MARGARIDO, G. R. A. Identification and characterization of euchromatic regions associated with gene expression and intramuscular fat in Nelore cattle. Journal of Animal Science, v. 96, suppl. S3, p. 233-234, 2019. Biblioteca(s): Embrapa Pecuária Sudeste. |
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5. | | RIPAMONTE, P.; BACCAGLINI, M.; CESAR, A. S. M.; FIGUEIREDO, L. G. G.; BALIEIRO, J. C. C.; CAETANO, A. R.; MEIRELLES, F. V. Estimation of taurindicine hybridization of American Zebu cattle in Brazil. Genetics and Molecular Research, v. 11, n. 1, p. 393-403, 2012. Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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6. | | MOREIRA, G. C. M.; CESAR, A. S. M.; GODOY, T. F.; BOSCHIERO, C.; LEDUR, M. C.; GARRICK, D. J.; MOURA, A. S. A. M. T.; COUTINHO, L. L. Genome-wide association studies reveal genomic windows and candidate genes related to fat deposition in chickens. In: PLANT & ANIMAL GENOME CONFERENCE, 24., 2016, San Diego, CA. [Abstracts...]. San Diego: [s.n.], 2016. Pôster P0647. Biblioteca(s): Embrapa Suínos e Aves. |
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7. | | OLIVEIRA, G. B. de; CESAR, A. S. M.; FELÍCIO, A. M.; KAPPELER, B. I. G.; POLETI, M. D.; REGITANO, L. C. de A.; COUTINHO, L. L. Evidence of miRNA regulation of intramuscular fat deposition in beef cattle. In: PLANT AND ANIMAL GENOME CONFERENCE, 24., 2016, San Diego. Anais... San Diego: PAG, 2016. Biblioteca(s): Embrapa Pecuária Sudeste. |
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8. | | VIGNATO, B. S.; COUTINHO, L. L.; CESAR, A. S. M.; POLETI, M. D.; REGITANO, L. C. de A.; BALIEIRO, J. C. de C. Comparative muscle transcriptome associated with carcass traits of Nellore cattle. BMC Genomics, v. 18, n. 506, p. 1-13, 2017. Biblioteca(s): Embrapa Pecuária Sudeste. |
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9. | | VIGNATO, B. S.; COUTINHO, L. L.; CESAR, A. S. M.; POLETI, M. D.; REGITANO, L. C. de A.; BALIEIRO, J. C. de C. Gene co-expression network analysis associated with carcass traits in Nellore steers. In: ANNUAL CONFERENCE OF AUSTRALIAN MARINE SCIENCES ASSOCIATION, 57., 2017, Darwin, Australia. Proceedings... Darwin, Australia: AMSA, 2017. Biblioteca(s): Embrapa Pecuária Sudeste. |
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10. | | VIGNATO B. S.; COUTINHO, L. L.; POLETI, M. D.; CESAR, A. S. M.; MONCAU, C. T.; REGITANO, L. C. de A.; BALIEIRO, J. C. C. Gene co-expression networks associated with carcass traits reveal new pathways for muscle and fat deposition in Nelore cattle. Genomics, v. 20, n. 32, p. 2-13, 2019. Biblioteca(s): Embrapa Pecuária Sudeste. |
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11. | | OLIVEIRA, G. B. de; CESAR, A. S. M.; FELICIO, A. M.; POLETI, M. D.; REGITANO, L. C. de A.; COUTINHO, L. L. Gene network regulated by microRNAs suggests modulation of fat deposition in cattle. Journal of Animal Science, v. 94, e-suppl. 5; Journal of Dairy Science, v. 99, e-suppl. 1, p. 159, jul. 2016. Biblioteca(s): Embrapa Pecuária Sudeste. |
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12. | | VIGNATO, B. S.; REGITANO, L. C. de A.; COUTINHO, L. L.; CESAR, A. S. M.; POLETI, M. D.; BALIEIRO, J. C. de C. NEDD4: a putative candidate gene for ribeye area in Nellore steers. In: WORKSHOP ON OMICS STRATEGIES APPLIED TO LIVESTOCK SCIENCE, 1., 2017, Piracicaba, SP. Proceedings... São Carlos, SP: Embrapa Pecuária Sudeste, 2017. p. 15. (Embrapa Pecuária Sudeste. Documentos, 125) Editores: Luiz Lehmann Coutinho, ESALQ/USP; Luciana Correia de Almeida Regitano, Embrapa Pecuária Sudeste; Gerson Barreto Mourão, ESALQ/USP; Aline Silva Mello Cesar, ESALQ/USP; Bárbara Silva Vignato, FZEA/USP; Mirele Daiana Poleti,... Biblioteca(s): Embrapa Pecuária Sudeste. |
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13. | | DINIZ, W. J. DA S.; TIZIOTO, P. C.; COUTINHO, L. L.; CESAR, A. S. M.; GROMBONI, C. F.; NOGUEIRA, A. R. de A.; REGITANO, L. C. de A. Transcriptomic analysis identifies differentially expressed genes related to lipid metabolism in extreme animals for GEBV for iron content in the muscle Nelore steers. In: REUNIÃO ANUAL DA SOCIEDADE BRASILEIRA DE ZOOTECNIA, 52., Belo Horizonte, 2015. Anais... Belo Horizonte: SBZ, 2015. Biblioteca(s): Embrapa Pecuária Sudeste. |
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14. | | GEISTLINGER, L.; SILVA, V. H. da; CESAR, A. S. M.; TIZIOTO, P. C.; WALDRON, L.; ZIMMER, R.; REGITANO, L. C. de A.; COUTINHO, L. L. Widespread modulation of gene expression by copy number variation in skeletal muscle. Scientific Reports, v. 8, n. 1399, p. 1-11, jan. 2018. Biblioteca(s): Embrapa Pecuária Sudeste. |
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15. | | SOUZA, M. M.; MOKRY, F. C.; TIZIOTO, P. C.; OLIVEIRA, P. S. N.; SOMAVILLA, A.; CESAR, A. S. M.; MORÉ, D.; MOURÃO, G.; DINIZ, W. J. S.; MUDADU, M. A.; NICIURA, S. C. M.; ZERLOTINI, A.; REGITANO, L. C. Allele specific expression analysis in bovine muscle tissue. In: INTERNATIONAL CONFERENCE OF TH AB3C, 11.; BRAZILIAN SYMPOSIUM OF BIOINFORMATICS, 2015, São Paulo. Proceedings... São Paulo: USP-São Paulo, 2015. Biblioteca(s): Embrapa Pecuária Sudeste. |
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16. | | SOUZA, M. M.; ZERLOTINI, A.; TIZIOTO, P. C.; OLIVEIRA, P. S. N.; SOMAVILLA, A. L.; MOKRY, F. B.; CESAR, A. S. M.; DINIZ, W. J. S.; MUDADU, M. A.; NICIURA, S. C. M.; COUTINHO, L. L.; REGITANO, L. C. A. Complex pattern of CAST allelic expression in bovine muscle tissue. In: ANNUAL INTERNATIONAL CONFERENCE ON INTELLIGENT SYSTEMS FOR MOLECULAR BIOLOGY, 22., 2014, Boston, USA. Program... [Boston]: International Society for Computational Biology, 2014. Não paginado. ISMB 2014. Pôster E13. Biblioteca(s): Embrapa Agricultura Digital. |
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17. | | DINIZ, W. J. da S.; BANERJEE, P.; MAZZONI, G.; COUTINHO, L. L.; CESAR, A. S. M.; AFONSO, J.; GROMBONI, C. F.; NOGUEIRA, A. R. de A.; KADARMIDEEN, H. N.; REGITANO, L. C. de A. Interplay among miR-29 family, mineral metabolism, and gene regulation in Bos indicus muscle. Molecular Genetics and Genomics, v. 295, p. 1113-1127, may. 2020. Biblioteca(s): Embrapa Pecuária Sudeste. |
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18. | | SOUZA, M. M.; ZERLOTINI, A.; TIZIOTO, P. C.; OLIVEIRA, P. S. N.; SOMAVILLA, A. L.; MOKRY, F. B.; CESAR, A. S. M.; DINIZ, W. J. S.; MUDADU, M. A.; NICIURA, S. C. M.; COUTINHO, L. L.; REGITANO, L. C. A. Monoallelic expression of NNAT gene in Nelore steers skeletal muscle. In: WORLD CONGRESS OF GENETICS APPLIED TO LIVESTOCK PRODUCTION, 10.; 2014, Vancouver. Proceedings... Vancouver: American Society of Animal Science, 2014. Não paginado. WCGALP 2014. Biblioteca(s): Embrapa Agricultura Digital. |
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19. | | NOVAIS, F. J. DE; YU, H.; CESAR, A. S. M.; MOMEN, M.; POLETI, M. D.; PETRY, B.; MOURÃO, G. B.; REGITANO, L. C. de A.; MOROTA, G.; COUTINHO, L. L. Multi-omic data integration for the study of production, carcass, and meat quality traits in Nellore cattle. Frontiers in Genetics, v. 13, 948240, oct. 2022. 14 p. Biblioteca(s): Embrapa Pecuária Sudeste. |
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20. | | OLIVEIRA, P. S. N. de; CESAR, A. S. M.; OLIVEIRA, G. B. de; TIZIOTO, P. C.; POLETI, M. D.; DINIZ, W. J. da S.; LIMA, A. O. de; REECY, J. M.; COUTINHO, L. L.; REGITANO, L. C. de A. miRNAs related to fatty acids composition in Nellore cattle. Journal of Animal Science, v. 94, e-suppl. 5; Journal of Dairy Science, v. 99, e-suppl. 1, p. 159, jul. 2016. p. 160. Biblioteca(s): Embrapa Pecuária Sudeste. |
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Registros recuperados : 78 | |
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Registro Completo
Biblioteca(s): |
Embrapa Pecuária Sudeste. |
Data corrente: |
31/08/2022 |
Data da última atualização: |
17/11/2022 |
Tipo da produção científica: |
Artigo em Periódico Indexado |
Circulação/Nível: |
A - 1 |
Autoria: |
VIGNATO, B. S.; CESAR, A. S. M.; AFONSO, J.; MOREIRA, G. C. M.; POLETI, M. D.; PETRINI, J.; GARCIA, I. S.; CLEMENTE, L. G.; MOURÃO, G. B.; REGITANO, L. C. de A.; COUTINHO, L. L. |
Afiliação: |
BÁRBARA SILVA VIGNATO, UNIVERSIDADE DE SÃO PAULO; ALINE SILVA MELLO CESAR, UNIVERSIDADE DE SÃO PAULO; JULIANA AFONSO, UNIVERSIDADE FEDERAL DE SÃO CARLOS; GABRIEL COSTA MONTEIRO MOREIRA, UNIVERSIDADE DE SÃO PAULO; MIRELE DAIANA POLETI, UNIVERSIDADE DE SÃO PAULO; JULIANA PETRINI, UNIVERSIDADE DE SÃO PAULO; INGRID SOARES GARCIA, UNIVERSIDADE DE SÃO PAULO; LUAN GASPAR CLEMENTE, UNIVERSIDADE DE SÃO PAULO; GERSON BARRETO MOURÃO, UNIVERSIDADE DE SÃO PAULO; LUCIANA CORREIA DE ALMEIDA REGITANO, CPPSE; LUIZ LEHMANN COUTINHO, UNIVERSIDADE DE SÃO PAULO. |
Título: |
Integrative analysis between genome-wide association study and expression quantitative trait Loci reveals bovine muscle gene expression regulatory polymorphisms associated with intramuscular fat and backfat thickness. |
Ano de publicação: |
2022 |
Fonte/Imprenta: |
Frontiers in Genetics, v. 13, 935238, aug. 2022. |
Páginas: |
15 p. |
DOI: |
10.3389/fgene.2022.935238 |
Idioma: |
Inglês |
Conteúdo: |
Understanding the architecture of gene expression is fundamental to unravel the molecular mechanisms regulating complex traits in bovine, such as intramuscular fat content (IMF) and backfat thickness (BFT). These traits are economically important for the beef industry since they affect carcass and meat quality. Our main goal was to identify gene expression regulatory polymorphisms within genomic regions (QTL) associated with IMF and BFT in Nellore cattle. For that, we used RNA-Seq data from 193 Nellore steers to perform SNP calling analysis. Then, we combined the RNA-Seq SNP and a high-density SNP panel to obtain a new dataset for further genome-wide association analysis (GWAS), totaling 534,928 SNPs. GWAS was performed using the Bayes B model. Twenty-one relevant QTL were associated with our target traits. The expression quantitative trait loci (eQTL) analysis was performed using Matrix eQTL with the complete SNP dataset and 12,991 genes, revealing a total of 71,033 cis and 36,497 trans-eQTL (FDR < 0.05). Intersecting with QTL for IMF, we found 231 eQTL regulating the expression levels of 117 genes. Within those eQTL, three predicted deleterious SNPs were identified. We also identified 109 eQTL associated with BFT and affecting the expression of 54 genes. This study revealed genomic regions and regulatory SNPs associated with fat deposition in Nellore cattle. We highlight the transcription factors FOXP4, FOXO3, ZSCAN2, and EBF4, involved in lipid metabolism-related pathways. These results helped us to improve our knowledge about the genetic architecture behind important traits in cattle. MenosUnderstanding the architecture of gene expression is fundamental to unravel the molecular mechanisms regulating complex traits in bovine, such as intramuscular fat content (IMF) and backfat thickness (BFT). These traits are economically important for the beef industry since they affect carcass and meat quality. Our main goal was to identify gene expression regulatory polymorphisms within genomic regions (QTL) associated with IMF and BFT in Nellore cattle. For that, we used RNA-Seq data from 193 Nellore steers to perform SNP calling analysis. Then, we combined the RNA-Seq SNP and a high-density SNP panel to obtain a new dataset for further genome-wide association analysis (GWAS), totaling 534,928 SNPs. GWAS was performed using the Bayes B model. Twenty-one relevant QTL were associated with our target traits. The expression quantitative trait loci (eQTL) analysis was performed using Matrix eQTL with the complete SNP dataset and 12,991 genes, revealing a total of 71,033 cis and 36,497 trans-eQTL (FDR < 0.05). Intersecting with QTL for IMF, we found 231 eQTL regulating the expression levels of 117 genes. Within those eQTL, three predicted deleterious SNPs were identified. We also identified 109 eQTL associated with BFT and affecting the expression of 54 genes. This study revealed genomic regions and regulatory SNPs associated with fat deposition in Nellore cattle. We highlight the transcription factors FOXP4, FOXO3, ZSCAN2, and EBF4, involved in lipid metabolism-related pathways... Mostrar Tudo |
Palavras-Chave: |
Backfat thickness; Carcass and meat quality; Expression quantitative trait loci; Intramuscular fat content; Nellore cattle; RNA Seq; SNP. |
Thesaurus NAL: |
Nellore. |
Categoria do assunto: |
G Melhoramento Genético |
URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/doc/1145918/1/IntegrativeAnalysisGenome.pdf
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Marc: |
LEADER 02780naa a2200361 a 4500 001 2145918 005 2022-11-17 008 2022 bl uuuu u00u1 u #d 024 7 $a10.3389/fgene.2022.935238$2DOI 100 1 $aVIGNATO, B. S. 245 $aIntegrative analysis between genome-wide association study and expression quantitative trait Loci reveals bovine muscle gene expression regulatory polymorphisms associated with intramuscular fat and backfat thickness.$h[electronic resource] 260 $c2022 300 $a15 p. 520 $aUnderstanding the architecture of gene expression is fundamental to unravel the molecular mechanisms regulating complex traits in bovine, such as intramuscular fat content (IMF) and backfat thickness (BFT). These traits are economically important for the beef industry since they affect carcass and meat quality. Our main goal was to identify gene expression regulatory polymorphisms within genomic regions (QTL) associated with IMF and BFT in Nellore cattle. For that, we used RNA-Seq data from 193 Nellore steers to perform SNP calling analysis. Then, we combined the RNA-Seq SNP and a high-density SNP panel to obtain a new dataset for further genome-wide association analysis (GWAS), totaling 534,928 SNPs. GWAS was performed using the Bayes B model. Twenty-one relevant QTL were associated with our target traits. The expression quantitative trait loci (eQTL) analysis was performed using Matrix eQTL with the complete SNP dataset and 12,991 genes, revealing a total of 71,033 cis and 36,497 trans-eQTL (FDR < 0.05). Intersecting with QTL for IMF, we found 231 eQTL regulating the expression levels of 117 genes. Within those eQTL, three predicted deleterious SNPs were identified. We also identified 109 eQTL associated with BFT and affecting the expression of 54 genes. This study revealed genomic regions and regulatory SNPs associated with fat deposition in Nellore cattle. We highlight the transcription factors FOXP4, FOXO3, ZSCAN2, and EBF4, involved in lipid metabolism-related pathways. These results helped us to improve our knowledge about the genetic architecture behind important traits in cattle. 650 $aNellore 653 $aBackfat thickness 653 $aCarcass and meat quality 653 $aExpression quantitative trait loci 653 $aIntramuscular fat content 653 $aNellore cattle 653 $aRNA Seq 653 $aSNP 700 1 $aCESAR, A. S. M. 700 1 $aAFONSO, J. 700 1 $aMOREIRA, G. C. M. 700 1 $aPOLETI, M. D. 700 1 $aPETRINI, J. 700 1 $aGARCIA, I. S. 700 1 $aCLEMENTE, L. G. 700 1 $aMOURÃO, G. B. 700 1 $aREGITANO, L. C. de A. 700 1 $aCOUTINHO, L. L. 773 $tFrontiers in Genetics$gv. 13, 935238, aug. 2022.
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