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| Registros recuperados: 97 | |
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| HONGO, J. A.; CASTRO, G. M. de; CINTRA, L. C.; ZERLOTINI, A.; LOBO, F. P.. |
| Abstract: Background: Detection of genes evolving under positive Darwinian evolution in genome-scale data is nowadays a prevailing strategy in comparative genomics studies to identify genes potentially involved in adaptation processes. Despite the large number of studies aiming to detect and contextualize such gene sets, there is virtually no software available to perform this task in a general, automatic, large-scale and reliable manner. This certainly occurs due to the computational challenges involved in this task, such as the appropriate modeling of data under analysis, the computation time to perform several of the required steps when dealing with genome-scale data and the highly error-prone nature of the sequence and alignment data structures needed... |
| Tipo: Artigo de periódico |
Palavras-chave: Potion; Evolução Darwiniana; Comparative genomics; Positive selection; Gene; Fenótipo; Pesquisa; Genomics; Phylogeny; Genes; Genome. |
| Ano: 2015 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1027912 |
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| ADUNOLA, P.; FERRÃO, M. A. G.; FERRÃO, R. G.; FONSECA, A. F. A. da; VOLPI, P. S.; COMÉRIO, M.; VERDIN FILHO, A. C.; MUNOZ, P. R.; FERRÃO, L. F. V.. |
| Coffee is one of the most important beverages and trade products in the world. Among the multiple research initiatives focused on coffee sustainability, plant breeding provides the best means to increase phenotypic performance and release cultivars that could meet market demands. Since coffee is well adapted to a diversity of tropical environments, an important question for those confronting the problem of evaluating phenotypic performance is the relevance of genotype-by-environment interaction. As a perennial crop with a long juvenile phase, coffee is subjected to significant temporal and spatial variations. Such facts not only hinder the selection of promising materials but also cause a majority of complaints among growers. In this study, we hypothesized... |
| Tipo: Artigo de periódico |
Palavras-chave: Coffea Canephora; Genomics; Genotype; Plant breeding; Prediction. |
| Ano: 2023 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1159395 |
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| NODA, R. W.; LAAT, D. M. de; GUIMARÃES, C. T.; SOUZA, T. C. de; DIAS, L. L. C.; LOBO, F. P.; MAGALHÃES, J. V. de; COIMBRA, R. S.; MAGALHÃES, P. C.; ZERLOTINI, A.; FRANCO, G. M.; CARNEIRO, N. P.. |
| In this study microarray data from roots of a drought tolerant inbred maize line (Embrapa?s breeding program) under two water regimes was analyzed. The analysis revealed that 746 genes were differentially expressed, of which 455 were up- and 291 were down-regulated. |
| Tipo: Parte de livro |
Palavras-chave: Genômica; Milho; Microarray technology; Corn; Genomics. |
| Ano: 2013 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/981622 |
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| SANTOS, C. S. DOS; SOUSA, M. B.; BRITO, A. C.; OLIVEIRA, L. A. de; CARVALHO, C. W. P. de; OLIVEIRA, E. J. de. |
| An understanding of cassava starch paste properties (CSPP) can contribute to the selection of clones with differentiated starches. This study aimed to identify genomic regions associated with CSPP using different genome-wide association study (GWAS) methods (MLM, MLMM, and Farm-CPU). The GWAS was performed using 23,078 single-nucleotide polymorphisms (SNPs). The rapid viscoanalyzer (RVA) parameters were pasting temperature (PastTemp), peak viscosity (PeakVisc), hot-paste viscosity (Hot-PVisc), cool-paste viscosty (Cold-PVisc), final viscosity (FinalVis), breakdown (BreDow), and setback (Setback). Broad phenotypic and molecular diversity was identified based on the genomic kinship matrix. The broad-sense heritability estimates (h2) ranged from moderate to... |
| Tipo: Artigo de periódico |
Palavras-chave: Fécula; Mandioca; Genoma; Cassava starch; Food paste; Genomics. |
| Ano: 2022 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1150198 |
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| COSTA, J. A. da; AZEVEDO, C. F.; NASCIMENTO, M.; SILVA, F. F. e; RESENDE, M. D. V. de; NASCIMENTO, A. C. C.. |
| multicollinearity and high dimensionality problems, making it impossible to obtain stable estimates through the traditional method of estimation based on ordinary least squares. To overcome such challenges, dimensionality reduction methods have been proposed, because of their simple theory and easy application. We compared three dimensionality reduction methods: Principal Components Regression (PCR), Partial Least Squares (PLS), and Independent Components Regression (ICR). An important step for dimensionality reduction and prediction is selecting the number of components, as it affects the linear combinations of the explanatory variables. The linear combinations are inserted into the model to predict the response based on a reduced number of parameters. We... |
| Tipo: Artigo de periódico |
Palavras-chave: Regression analysis; Genomics. |
| Ano: 2021 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1139234 |
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| ALVARENGA, S. M.; CAIXETA, E. T.; HUFNAGEL, B.; THIEBAUT, F.; ZAMBOLIM, E. M.; ZAMBOLIM, L.; SAKIYAMA, N. S.. |
| Sequences potentially associated with coffee resistance to diseases were identified by in silico analyses using the database of the Brazilian Coffee Genome Project (BCGP). Keywords corresponding to plant resistance mechanisms to pathogens identified in the literature were used as baits for data mining. Expressed sequence tags (ESTs) related to each of these keywords were identified with tools available in the BCGP bioinformatics platform. A total of 11,300 ESTs were mined. These ESTs were clustered and formed 979 EST-contigs with similarities to chitinases, kinases, cytochrome P450 and nucleotide binding site-leucine rich repeat (NBS-LRR) proteins, as well as with proteins related to disease resistance, pathogenesis, hypersensitivity response (HR) and... |
| Tipo: Artigo de periódico |
Palavras-chave: Data mining; ESTs.; Coffea; Genomics; Bioinformatics.. |
| Ano: 2010 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/880494 |
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| URBINATI, I.; STAFUZZA, N. B.; OLIVEIRA, M. T.; CHUD, T. C. S.; HIGA, R. H.; REGITANO, L. C. de A.; ALENCAR, M. M. de; BUZANSKAS, M. E.; MUNARI, D. P.. |
| Background: Recent technological advances in genomics have allowed the genotyping of cattle through single nucleotide polymorphism (SNP) panels. High-density SNP panels possess greater genome coverage and are useful for the identification of conserved regions of the genome due to selection, known as selection signatures (SS). The SS are detectable by different methods, such as the extended haplotype homozygosity (EHH); and the integrated haplotype score (iHS), which is derived from the EHH. The aim of this study was to identify SS regions in Canchim cattle (composite breed), genotyped with high-density SNP panel. Results: A total of 687,655 SNP markers and 396 samples remained for SS analysis after the genotype quality control. The iHS statistic for each... |
| Tipo: Artigo de periódico |
Palavras-chave: Genômica; Polimorfismo de nucleotídeo único; Extended haplotype homozygosity; Gado de corte; Composite breeds; Genomics; Single nucleotide polymorphism; Beef cattle; Quantitative trait loci. |
| Ano: 2016 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1061492 |
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| CRUZ, I. R.; GERALDO, J. A.; OLIVEIRA, F. S. de; LEITE, L. R.; ARAÚJO, F.; ZERLOTINI, A.; LOPES, B. C.; ARBEX, W. A.; MACHADO, M. A.; PEIXOTO, M. G. C. D.; VERNEQUE, R. da S.; MARTINS, M. F.; SILVA, M. V. G. B.; COIMBAR, R. S.; CARVALHO, M. R. S.; OLIVEIRA, G.. |
| The objective of our work was to sequence and assemble the Guzerá genome in order to identify race-specific variations that might be used in breeding programs. |
| Tipo: Anais e Proceedings de eventos |
Palavras-chave: Polimorfismo de nucleotídeo único; Criação de animais; Análise de sequência de genomas; Single nucleotide polymorphism; Animal breeding; Sequence analysis; Genomics. |
| Ano: 2013 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/973157 |
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| LIMA, R. S.; LOBO, F. P.; CARAZZOLLE, M. F.; COSTA, G. G. L.; RODRIGUES, E. L. de C.; ALVES, A. A.; YAMAGISHI, M. E. B.; SOUZA JUNIOR, M. T.; FORMIGHIERI, E. F.. |
| In that scenario, Embrapa Agroenergy is making efforts to improve bioenergy generation and accelerate selection of superior genotypes, through NGS and large-scale genotyping technologies. Some colleagues have already estimated of Elaeis species genome size using flow cytometry, and in parallel, we sequenced one lane of Illumina HiSeq 2000 for three E. oleifera and one E. guineensis accessions, for initial comparison. |
| Tipo: Anais e Proceedings de eventos |
Palavras-chave: Genoma de palmeira; Óleo de palma.; Elaeis Guineensis.; Palm oils; Genomics. |
| Ano: 2012 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/946637 |
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| CARVALHO, H. F.; FERRÃO, L. F. V.; GALLI, G.; NONATO, J. V. A.; PADILHA, L.; MALUF, M. P.; RESENDE JR., M. F. R. de; FRITSCHE-NETO, R.; GUERREIRO-FILHO, O.. |
| Obtaining resistance cultivars for leaf miner and leaf rust are the main important strategy of Brazil?s national coffee breeding program. The narrow genetic basis, and founder effect consequences, lead to challenges in quantifying and detecting genetic diversity for these traits. Biotechnology tools allied with classical breeding strategies are powerful in detecting variability and deploying a precision selection. The selection based on the genetic merit of an individual obtained from thousands of single nucleotide polymorphism effects is known as genomic selection. The ordinal scale principally makes the resistance evaluation of the leaf rust and leaf miner of the score, categorizing the phenotypes following the discrete (ordinal) distribution. Hence,... |
| Tipo: Artigo de periódico |
Palavras-chave: Coffea arabica var. arabica; Leucoptera; Hemileia; Leaf rust; Genomics. |
| Ano: 2023 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1156023 |
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| SANTOS, J. V. M. dos; JOSHI, T.; KHAN, S. M.; LIU, Y.; WANG, J.; VUONG, T. D.; MARCELINO-GUIMARÃES, F. C.; OLIVEIRA, M. F. de; VALLIYODAN, B.; XU, D.; NGUYEN, H. T.; ABDELNOOR, R. V.. |
| Tipo: Parte de livro |
Palavras-chave: Soja; Genoma; Melhoramento genético vegetal; Soybeans; Genomics. |
| Ano: 2015 |
URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1018778 |
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| Registros recuperados: 97 | |
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