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Registros recuperados: 28 | |
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SOUZA, M. M. de; ZERLOTINI NETO, A.; ROCHA, M. I. P.; BRUSCADIN, J. J.; DINIZ, W. J. da S.; CARDOSO, T. F.; CESAR, A. S. M.; AFONSO, J.; ANDRADE, B. G. N.; MUDADU, M. de A.; MOKRY, F. B.; TIZIOTO, P. C.; OLIVEIRA, P. S. N. de; NICIURA, S. C. M.; COUTINHO, L. L.; REGITANO, L. C. de A.. |
Differences between the expression of the two alleles of a gene are known as allele-specific expression (ASE), a common event in the transcriptome of mammals. Despite ASE being a source of phenotypic variation, its occurrence and effects on genetic prediction of economically relevant traits are still unexplored in bovines. Furthermore, as ASE events are likely driven by cis-regulatory mutations, scanning them throughout the bovine genome represents a significant step to elucidate the mechanisms underlying gene expression regulation. To address this question in a Bos indicus population, we built the ASE profile of the skeletal muscle tissue of 190 Nelore steers, using RNA sequencing data and SNPs genotypes from the Illumina BovineHD BeadChip (770 K bp).... |
Tipo: Artigo de periódico |
Palavras-chave: Expressão gênica; Regulação da expressão gênica; Allelic expression; Allele-specific expression; Bos Indicus; Gene expression regulation. |
Ano: 2020 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1125395 |
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ROCHA, M. I. P.; SOUZA, M. M. de; ZERLOTINI NETO, A.; TIZIOTO, P. C.; OLIVEIRA, P. S. N. de; LIMA, A. O. de; AFONSO, J.; COUTINHO, L. L.; REGITANO, L. C. de A.; NICIURA, S. C. M.. |
Tipo: Separatas |
Palavras-chave: Allele-specific expression; Genome regulation.; Genetic improvement.. |
Ano: 2017 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1073455 |
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LIMA, A. O. de; OLIVEIRA, P. S. N. de; TIZIOTO, P. C.; AFONSO, J.; SOMAVILLA, A. L.; DINIZ, W. J. da S.; SILVA, J. V. da; ROCHA, M. I. P.; MUDADU, M. de A.; COUTINHO, L. L.; REGITANO, L. C. de A.. |
Tipo: Anais e Proceedings de eventos |
Palavras-chave: Haplótipo; SNPs; Gado de corte; Gado nelore; Haplotypes; Nellore. |
Ano: 2016 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1056239 |
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DINIZ, W. J. da S.; CESAR, A. S. M.; GEISTLINGER, L.; TIZIOTO, P. C.; OLIVEIRA, P. S. N. de; AFONSO, J.; ROCHA, M. I. P.; LIMA, A. O. de; BUSS, C. E.; COUTINHO, L. L.; REGITANO, L. C. de A.. |
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, ESALQ/USP; Wellison Jarles da Silva Diniz, UFSCar. |
Tipo: Separatas |
Palavras-chave: Network analysis; Systems biology.; Gene expression.. |
Ano: 2017 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1075630 |
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DINIZ, W. J. da S.; CESAR, A. S. M.; GEISTLINGER, L.; TIZIOTO, P. C.; OLIVEIRA, P. S. N. de; AFONSO, J.; ROCHA, M. I. P.; LIMA, A. O. de; BUSS, C. E.; COUTINHO, L. L.; REGITANO, L. C. de A.. |
Tenderness is an important trait of meat quality and is known to be influenced by several factors including genetic composition. |
Tipo: Separatas |
Palavras-chave: Network analysis; System biology.; Gene expression.. |
Ano: 2017 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1080848 |
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CONTEVILLE, L. C.; SILVA, W. DOS S.; CARDOSO, T. F.; ANDRADE, B. G. N.; REGITANO, L. C. de A.; SILVA, J. V.; CHAGAS, A. C. de S.; KAPRITCHKOFF, R. T. I.; OKINO, C. H.; BRUSCADIN, J.; AFONSO, J.. |
Morada Nova é uma raça de ovelhas deslanadas adaptadas ao clima tropical do país e que possuem aptidão relacionada à produção de carne e couro. |
Tipo: Anais e Proceedings de eventos |
Palavras-chave: Nematóides; Biomarcadores; Amplicon Sequencing Variants; Bactérias; Bioinformática. |
Ano: 2022 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1150813 |
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DINIZ, W. J. S.; MAZZONI, G.; COUTINHO; BANERJEE, P.; GEISTLINGER, L.; CESAR, A. S. M.; BERTOLINI. F.; AFONSO, J.; OLIVEIRA, P. S. N.; TIZIOTO, P. C.; KADARMIDEEN, H. N.; REGITANO, L. C. de A.. |
Meat quality is a complex trait that is influenced by genetic and environmental factors, which includes mineral concentration. However, the association between mineral concentration and meat quality, and the specific molecular pathways underlying this association, are not well explored. We therefore analyzed gene expression as measured with RNA-seq in Longissimus thoracis muscle of 194 Nelore steers for association with three meat quality traits (intramuscular fat, meat pH, and tenderness) and the concentration of 13 minerals (Ca, Cr, Co, Cu, Fe, K, Mg, Mn, Na, P, S, Se, and Zn). We identified seven sets of co-expressed genes (modules) associated with at least two traits, which indicates that common pathways influence these traits. From pathway analysis of... |
Tipo: Artigo de periódico |
Palavras-chave: AMPK pathway; Co-expression analysis; RNA sequencing; Tenderness; Gordura Animal; Gado de Corte; Intramuscular fat; Beef quality; Beef cattle. |
Ano: 2019 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1107117 |
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BRUSCADIN, J. J.; CARDOSO, T. F.; DINIZ, W. J. da S.; SOUZA, M. M. de; AFONSO, J.; VIEIRA, D.; MALHEIROS, J. M.; ANDRADE, B. G. N.; PETRINI, J.; FERRAZ, J. B. S.; ZERLOTINI NETO, A.; MOURÃO, G. B.; COUTINHO, L. L.; REGITANO, L. C. de A.. |
Abstract: Traditional transcriptomics approaches have been used to identify candidate genes affecting economically important livestock traits. Regulatory variants affecting these traits, however, remain under covered. Genomic regions showing allele-specific expression (ASE) are under the effect of cis-regulatory variants, being useful for improving the accuracy of genomic selection models. Taking advantage of the better of these two methods, we investigated single nucleotide polymorphisms (SNPs) in regions showing differential ASE (DASE SNPs) between contrasting groups for beef quality traits. For these analyses, we used RNA sequencing data, imputed genotypes and genomic estimated breeding values of muscle-related traits from 190 Nelore (Bos indicus)... |
Tipo: Artigo de periódico |
Palavras-chave: Polimorfismos de nucleotídeo único; Expressão gênica; Expressão alelo específica; Cis-regulation; ASE; Allele-specific expression; Fenótipo; Single nucleotide polymorphism; Gene expression; Phenotype; Beef. |
Ano: 2022 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1151168 |
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BALIEIRO, J. C. DE C.; MEIRA, A. N.; FINALLI, S. L.; SILVA, B. P. M. DA; GOMES, J. D.; ALMEIDA, V. V. DE; FREITAS, F. A. O.; MOREIRA, G. C. M.; VIGNATO, B. S.; AFONSO, J.; REECY, J.; KOLTES, J.; KOLTES, D.; REGITANO, L. C. de A.; GARRICK, D. J.; CESAR, A. S. M.; LUCHIARI FILHO, A.; ALENCAR, S. M. DE; MOURÃO, G. B.; FUKUMASU, H.; COUTINHO, L. L.; FREITAS, L.. |
The aim of this study was to identify the differentially expressed genes (DEG) from the skeletal muscle and liver samples of animal models for metabolic diseases in humans. To perform the study, the fatty acid (FA) profile and RNA sequencing (RNA-Seq) data of 35 samples of liver tissue (SOY1.5, n = 17 and SOY3.0, n = 18) and 36 samples of skeletal muscle (SOY1.5, n = 18 and SOY3.0, n = 18) of Large White pigs were analyzed. The FA profile of the tissues was modified by the diet, mainly those related to monounsaturated (MUFA) and polyunsaturated (PUFA) FA. The skeletal muscle transcriptome analysis revealed 45 DEG (FDR 10%), and the functional enrichment analysis identified network maps related to inflammation, immune processes, and pathways associated with... |
Tipo: Artigo de periódico |
Palavras-chave: Fatty acid; RNAseq; Hepatic tissue; Animal model; Longissimus lomborum; Transcriptome; Immune response; Metabolism. |
Ano: 2022 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1145998 |
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SILVA, J. V. da; TIZIOTO, P. C.; NEUBERN, P. S. N. de; AFONSO, J.; DINIZ, W. J. da S.; LIMA, A. O. de; SOUZA, M. M. de; ROCHA, M. I. P.; BUSS, C. E.; COUTINHO, L. L.; REGITANO, L. C. de A.. |
Tipo: Anais e Proceedings de eventos |
Palavras-chave: RNA-seq; ADG; Gado Zebu; Zebu. |
Ano: 2016 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1056895 |
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SOUZA, M. M. de; NICIURA, S. C. M.; ROCHA, M. I. P.; PAN, Z.; ZHOU, H.; BRUSCADIN, J. J.; DINIZ, W. J. da S.; AFONSO, J.; OLIVEIRA, P. S. N. de; MOURÃO, G. B.; ZERLOTINI NETO, A.; COUTINHO, L. L.; KOLTES, J. E.; REGITANO, L. C. de A.. |
Abstract. Background:Beef tenderness is a complex trait of economic importance for the beef industry. Understanding the epigenetic mechanisms underlying this trait may help improve the accuracy of breeding programs. However, little is known about epigenetic effects on Bos taurus muscle and their implications in tenderness, and no studies have been conducted in Bos indicus.Results:Comparing methylation profile of Bos indicus skeletal muscle with contrasting beef tenderness at 14 days after slaughter, we identified differentially methylated cytosines and regions associated with this trait. Interestingly, muscle that became tender beef had higher levels of hypermethylation compared to the tough group. Enrichment analysis of predicted target genes suggested... |
Tipo: Artigo de periódico |
Palavras-chave: Nelore; Epigenoma; Músculo de nelore; RRBS; GNAS; EBF3; Força de cisalhamento; Shear force; Epigenome; Muscle; Metilação; Bos Taurus; Bos Indicus; Músculo; Cattle; Methylation; DNA methylation. |
Ano: 2022 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1144144 |
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SILVA, J. V. da; TIZIOTO, P. C.; OLIVEIRA, P. S. N. de; AFONSO, J.; DINIZ, W. J. da S.; LIMA, A. O. de; SOUZA, M. M. de; ROCHA, M. I. P.; BUSS, C. E.; COUTINHO, L. L.; REGITANO, L. C. de A.. |
Tipo: Anais e Proceedings de eventos |
Palavras-chave: RNA-seq; Eficiência alimentar.; Bos Indicus.. |
Ano: 2016 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1054252 |
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AFONSO, J.; FORTES, M. R. S.; REVERTER, A.; DINIZ, W. J. da S.; CESAR, A. S. M.; LIMA, A. O. de; PETRINI, J.; SOUZA, M. de S.; COUTINHO, L. L.; MOURÃO, G. B.; ZERLOTINI NETO, A.; GROMBONI, C. F.; NOGUEIRA, A. R. A.; REGITANO, L. C. de A.. |
Mineral contents in bovine muscle can affect meat quality, growth, health, and reproductive traits. To better understand the genetic basis of this phenotype in Nelore (Bos indicus) cattle, we analysed genome-wide mRNA and miRNA expression data from 114 muscle samples. The analysis implemented a new application for two complementary algorithms: the partial correlation and information theory (PCIT) and the regulatory impact factor (RIF), in which we included the estimated genomic breeding values (GEBVs) for the phenotypes additionally to the expression levels, originally proposed for these methods. We used PCIT to determine putative regulatory relationships based on significant associations between gene expression and GEBVs for each mineral amount. Then, RIF... |
Tipo: Artigo de periódico |
Palavras-chave: Expressão gênica; Bos Indicus; Gado Nelore; Cattle; Gene expression. |
Ano: 2020 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1124802 |
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SOUZA, M. M. de; ZERLOTINI NETO, A.; NICIURA, S. C. M.; ROCHA, M. I. P.; DINIZ, W. J.; TIZIOTO, P. C.; OLIVEIRA, P. S. N. de; LIMA, A. O.; AFONSO, J.; CESAR, A. S. M; COUTINHO, L. L.; REGITANO, L. C. de A.. |
The difference between the allelic expression of a gene is known as allele-specific expression (ASE), and it is a common event in mammal?s transcriptome. ASE is named genomic imprinting when guided by epigenetics mechanisms regarding the allele parental origin. |
Tipo: Separatas |
Palavras-chave: ASE; Allele-specific expression; Polimorfismo Genético; Melhoramento Genético Animal; Gene expression. |
Ano: 2018 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1100405 |
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BUSS, C. E.; PETRINI, J.; MOURAO, G. B.; GEISTLINGER, L.; WOLF, J. B.; DINIZ, W. J. da S.; ROCHA, M. I. P.; AFONSO, J.; LIMA, A. O. de; TIZIOTO, P. C.; TULLIO, R. R.; ANDRADE, B. G.; COUTINHO, L. L.; REGITANO, L. C. de A.. |
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, ESALQ/USP; Wellison Jarles da Silva Diniz, UFSCar. |
Tipo: Separatas |
Palavras-chave: Feed efficiency; Genome?wide association.; Lipolysis; Pleiotropy.. |
Ano: 2017 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1075651 |
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AFONSO, J.; TIZIOTO, P. C.; OLIVEIRA, P. S. N. de; DINIZ, W. J. da S.; LIMA, A. O. de; SOUZA, M. M. de; ROCHA, M. I. P.; SILVA, J. V. da; BUSS, C. E.; GROMBONI, C. F.; MOURAO, G. B.; NOGUEIRA, A. R. de A.; COUTINHO, L. L.; REGITANO, L. C. de A.. |
Tipo: Separatas |
Palavras-chave: Genome regulation.; Gene expression; Meat production.. |
Ano: 2017 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1079227 |
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BUSS, C. E.; DINIZ, W. J. da S.; ANDRADE, B. G.; LIMA, A. O. de; GEISTLINGER, L.; AFONSO, J.; TULLIO, R. R.; TIZIOTO, P. C.; PETRINI, J.; COUTINHO, L. L.; WOLF, J. B.; MOURAO, G. B.; REGITANO, L. C. de A.. |
Tipo: Separatas |
Palavras-chave: Feed efficiency; Transcription factor.; Pleiotropy.. |
Ano: 2017 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1079239 |
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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.. |
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... |
Tipo: Artigo de periódico |
Palavras-chave: Backfat thickness; Carcass and meat quality; Expression quantitative trait loci; Intramuscular fat content; RNA Seq; SNP; Nellore cattle; Nellore. |
Ano: 2022 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1145918 |
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ROCHA, M. I. P.; SOUZA, M. M. de; ZERLOTINI NETO, A.; TIZIOTO, P. C.; OLIVEIRA, P. S. N. de; LIMA, A. O. de; AFONSO, J.; DINIZ, W. J. da S.; BUSS, C. E.; COUTINHO, L. L.; REGITANO, L. C. de A.; NICIURA, S. C. M.. |
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, ESALQ/USP; Wellison Jarles da Silva Diniz, UFSCar. |
Tipo: Separatas |
Palavras-chave: Residual feed intake; Differential expression.; Cattle; MicroRNA.. |
Ano: 2017 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1075647 |
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Registros recuperados: 28 | |
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