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Registros recuperados: 134
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A cost-effective approach to DNA methylation detection by Methyl Sensitive DArT sequencing. Repositório Alice
PEREIRA, W. J.; PAPPAS, M. de C. R.; GRATTAPAGLIA, D.; PAPPAS JUNIOR, G. J..
bitstream/item/215602/1/journal.pone.0233800.pdf
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: DNA Sequencing; Epigenetic Inheritance; Genome; Transposons; Sulfites; Methylation; Genes; Genomics.
Ano: 2020 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1124582
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A first generation integrated map of the rainbow trout genome Inra
Palti, Y.; Genet, C.; Luo, M.C.; Charlet, A.; Gao, G.; Hu, Y.; Castaño-Sánchez, C.; Tabet-Canale, K.; Krieg, F.; Yao, J.; Vallejo, R.L.; Rexroad III, C.E..
Background: Rainbow trout (Oncorhynchus mykiss) are the most-widely cultivated cold freshwater fish in the worldand an important model species for many research areas. Coupling great interest in this species as a researchmodel with the need for genetic improvement of aquaculture production efficiency traits justifies the continueddevelopment of genomics research resources. Many quantitative trait loci (QTL) have been identified forproduction and life-history traits in rainbow trout. An integrated physical and genetic map is needed to facilitatefine mapping of QTL and the selection of positional candidate genes for incorporation in marker-assisted selection(MAS) programs for improving rainbow trout aquaculture production.Results: The first generation...
Tipo: Journal Article Palavras-chave:  Rainbow trout (Oncorhynchus mykiss); Genomic research; QTL; Genome; Genetic maps.
Ano: 2011 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PROD201141cecd7b&uri=/notices/prodinra1/2011/06/
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A network landscape from CNVs to Nellore cattle beef tenderness. Repositório Alice
SILVA, V. H.; GIACHETTO, P. F.; TIZIOTO, P. L.; GONÇALVES, T. M.; REGITANO, L. C. A.; COUTINHO, L. L..
This work aims to perform a couple of in silico network analysis from CNVs standpoint, shedding light to possible metabolic connections to tenderness. It was used 671 Nellore males to infer CNVs, through SNP-chip (Illumina Bovine HD Beadchip®, containing approximately 770 thousand SNPs) and PennCNV software methodology. CNV regions (CNVRs) were inferred by CNVRuler (recurrence 0.1).
Tipo: Resumo em anais de congresso (ALICE) Palavras-chave: Gado de corte; Genoma; Beef cattle; Nellore; Genome.
Ano: 2013 URL: http://www.alice.cnptia.embrapa.br/handle/doc/969359
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A network landscape from CNVs to Nellore cattle beef tenderness. Repositório Alice
SILVA, V. H.; GIACHETTO, P. F.; TIZIOTO, P. L.; GONÇALVES, T. M.; REGITANO, L. C. A.; COUTINHO, L. L..
This work aims to perform a couple of in silico network analysis from CNVs standpoint, shedding light to possible metabolic connections to tenderness. It was used 671 Nellore males to infer CNVs, through SNP-chip (Illumina Bovine HD Beadchip®, containing approximately 770 thousand SNPs) and PennCNV software methodology. CNV regions (CNVRs) were inferred by CNVRuler (recurrence 0.1).
Tipo: Artigo em anais de congresso (ALICE) Palavras-chave: Gado de corte; Genoma; Beef cattle; Nellore; Genome.
Ano: 2013 URL: http://www.alice.cnptia.embrapa.br/handle/doc/988596
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A new BLAST-based Gbrowse plugin. Repositório Alice
VELLOZO, A.; LOBO, F. P.; YAMAGISHI, M..
In this work, we present a new plugin to search sequences against the genome using the BLAST tool.
Tipo: Resumo em anais de congresso (ALICE) Palavras-chave: Bioinformática; Genoma; Sequência genética; Bioinformatics; Genome; Sequence analysis.
Ano: 2012 URL: http://www.alice.cnptia.embrapa.br/handle/doc/946664
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A Novel betabaculovirus isolated from the monocot pest mocis latipes (Lepidoptera: Noctuidae) and the evolution of multiple-copy genes. Repositório Alice
ARDISSON-ARAÚJO, D. M. P.; SILVA, A. M. R. da; MELO, F. L.; SANTOS, E. R. dos; SÓSA-GOMEZ, D. R.; RIBEIRO, B. M..
bitstream/item/191287/1/Ardisson-Araujo-Novel-open.pdf
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Baculovirus; Mocis Latipes; Inseto; Genome; Mocis; Evolution; Insects.
Ano: 2018 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1104737
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A strategy to identify genomic expression at single-cell level or a small number of cells Electron. J. Biotechnol.
Li,Biaoru.
Recent advances in functional genomics allow us to estimate the expression of several thousands of genes in the mammalian genome. Techniques such as microarrays, expressed tag sequencing (EST), serial analysis of gene expression (SAGE), subtractive cloning and differential display (DD), and two-dimensional electrophoresis gel have been extensively used to screen and analyze parallel gene expression. Some pathological processes, for example, tumorigenesis and solid tumour growth, in which the former is derived from a single-cell and the latter has a mixed-cell problem, present new challenges to the limit of these functional genomic techniques. To fully understand the functions of cells in tumorigenesis or in heterogeneous solid tumour masses, it is...
Tipo: Journal article Palavras-chave: Genome; Genomic expression; Genomic expression analysis at single cell; Single cell.
Ano: 2005 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582005000100011
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A Temporal diversity analysis of brazilian begomoviruses in tomato reveals a decrease in species Richness between 2003 and 2016. Repositório Alice
SOUZA, T. A.; SILVA, J. M. F.; NAGATA, T.; MARTINS, T. P.; NAKASU, E. Y. T.; INOUE-NAGATA, A. K..
In this study, we estimated genetic diversity changes in begomoviruses that infect tomato plants in an important tomato-growing region in Central Brazil through ~ 14 years.
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: ToMoLCV; ToSRV; Bemisia Tabaci; Begomovirus; Metagenomics; Tomatoes; Genome; Solanum lycopersicum.
Ano: 2020 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1124206
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Abundance, distribution and potential impact of transposable elements in the genome of Mycosphaerella fijiensis. Repositório Alice
SANTANA, M. F.; SILVA, J. C. F.; BATISTA, A. D.; RIBEIRO, L. E.; SILVA, G. F. da; ARAÚJO, E. F. de; QUEIROZ, M. V. de.
Mycosphaerella fijiensis is a ascomycete that causes Black Sigatoka in bananas. Recently, the M. fijiensis genome was sequenced. Repetitive sequences are ubiquitous components of fungal genomes. In most genomic analyses, repetitive sequences are associated withtransposable elements (TEs). TEs are dispersed repetitive DNA sequences found in a host genome. These elements have the ability to move from one location to another within the genome, and their insertion can cause a wide spectrum of mutations in their hosts. Some of the deleterious effects of TEs may be due to ectopic recombination among TEs of the same family. In addition, some transposons are physically linked to genes and can control their expression. To prevent possible damage caused by the...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Mycosphaerella fijiensis; Transposable elements; RIP; Genome.
Ano: 2012 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/946093
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Allele specific expression analysis in bovine muscle tissue. Repositório Alice
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.; COUTINHO, L. L.; ZERLOTINI NETO, A.; REGITANO, L. C..
Imprinted genes have been target of many studies, mainly in human and mouse, and lately in bovines due to the interest of understanding the epigenetic mechanisms underlying important meat quality phenotypes and the possibility of applying it in animal breeding programs in the future. Genomic DNA from 146 steers was genotyped using the Illumina BovineHD BeadChip in order to identify heterozygous individuals with known allele origin.
Tipo: Resumo em anais de congresso (ALICE) Palavras-chave: Bioinformática; Expressão gênica; Genoma; Bioinformatics; Gene expression; Genome.
Ano: 2015 URL: http://www.alice.cnptia.embrapa.br/handle/doc/1035220
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Allele specific expression analysis in bovine muscle tissue. Repositório Alice
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.; COUTINHO, L. L.; ZERLOTINI, A.; REGITANO, L. C..
Imprinted genes have been target of many studies, mainly in human and mouse, and lately in bovines due to the interest of understanding the epigenetic mechanisms underlying important meat quality phenotypes and the possibility of applying it in animal breeding programs in the future. Genomic DNA from 146 steers was genotyped using the Illumina BovineHD BeadChip in order to identify heterozygous individuals with known allele origin.
Tipo: Resumo em anais de congresso (ALICE) Palavras-chave: Bioinformática; Expressão gênica; Genoma; Bioinformatics; Genome; Gene expression.
Ano: 2015 URL: http://www.alice.cnptia.embrapa.br/handle/doc/1035029
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An efficient implementation of Relief-F algorithm for Genome-Wide Association Studies. Repositório Alice
SHIBATA, R.; HIGA, R..
Although Relief can be adapted for regression context, in this work we approach only for classification context.
Tipo: Resumo em anais de congresso (ALICE) Palavras-chave: Genoma; Single nucleotide polymorphism; Genome.
Ano: 2012 URL: http://www.alice.cnptia.embrapa.br/handle/doc/946448
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An overall evaluation of the resistance (R) and pathogenesis-related (PR) superfamilies in soybean, as compared with Medicago and Arabidopsis. Repositório Alice
WANDERLEY-NOGUEIRA, A. C.; BELARMINO, L. C.; SOARES-CAVALCANTI, N. da M.; BEZERRA-NETO, J. P.; KIDO, E. A.; PANDOLFI, V.; ABDELNOOR, R. V.; BINNECK, E.; CARAZZOLE, M. F.; BENKO-ISEPPON, A. M..
Plants have the ability to recognize and respond to a multitude of pathogens, resulting in a massive reprogramming of the plant to activate defense responses including Resistance (R) and Pathogenesis-Related (PR) genes. Abiotic stresses can also activate PR genes and enhance pathogen resistance, representing valuable genes for breeding purposes. The present work offers an overview of soybean R and PR genes present in the GENOSOJA (Brazilian Soybean Genome Consortium) platform, regarding their structure, abundance, evolution and role in the plantpathogen metabolic pathway, as compared with Medicago and Arabidopsis. Searches revealed 3,065 R candidates (756 in Soybean, 1,142 in Medicago and 1,167 in Arabidopsis), and PR candidates matching to 1,261 sequences...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Bioinformática; Biotic stress; Pathogen response; Soja; Resposta da planta; Doença de planta; Gene; Genoma; Soybeans; Bioinformatics; Plant diseases and disorders; Genome; Genes.
Ano: 2012 URL: http://www.alice.cnptia.embrapa.br/handle/doc/926612
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An R script for quality control in genome-wide association studies. Repositório Alice
HIGA, R.; BARRICHELLO, F.; NICIURA, S.; MEIRELLES, S.; REGITANO, L..
Recent advances in massive genotyping technology based on SNP (Single Nucleotide Polymorphisms) markers are pushing animal breeding research into a new era where the entire genome is screened in the search for genes which affect traits of economic interest, called genome wide association studies (GWAS). The first step in setting up a GWAS is to perform a quality control analysis (QC) on the genotyped data in order to filter out samples and SNPs not satisfying a previously defined set of criteria [1]. The most common criteria include sample and SNP call rate, minor allele frequency (MAF) and Hardy-Weinberg equilibrium (HWE). It is also recommended to analyze the heterozygosity and the presence of population structure and outlier samples. However, a...
Tipo: Resumo em anais de congresso (ALICE) Palavras-chave: Genoma; Marcadores SNP; Polimorfismo de nucleotídeo único; Gado de corte; Genome; Single nucleotide polymorphism; Cattle.
Ano: 2011 URL: http://www.alice.cnptia.embrapa.br/handle/doc/908682
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Analysing nonsynonymous mutations between two Mycobacterium bovis strains with contrasting pathogenic profiles. Repositório Alice
BIGI, M.; VAZQUEZ, C. L.; CASTELÃO, A. B. C.; GARCÍA, E. A.; CATALDI, A. A.; JACKSON, M.; MAcNEIL, M.; SORIA, M.; ZUMÁRRAGA, M. J.; MATIAS, C.; GAGO, G.; BLANCO, F. C.; NISHIBEF, C.; ALMEIDA, N. F.; ARAUJO, F. R.; BIGI, F..
Mycobacterium bovis (M. bovis) is the causative agent of bovine tuberculosis, a chronic infectious disease that can affect cattle, other domesticated species, wild animals and humans. This disease produces important economic losses worldwide. Two M. bovis strains (04-303 and 534) have been isolated in Argentina. Whereas the 04-303 strain was isolated from a wild boar, the 534 strain was obtained from cattle. In a previous study, six weeks after infection, the 04-303 strain induced 100% mortality in mice. By contrast, mice infected with the 534 strain survived, with limited tissue damage, after four months. In this study we compared all predictive proteins encoded in both M. bovis genomes. The comparative analysis revealed 141 polymorphic proteins between...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Mutations; Gene; Mycobacterium bovis BCG; Genome; Virulence.
Ano: 2019 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1117921
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Ant colony algorithm for analysis of gene interaction in high-dimensional association data R. Bras. Zootec.
Rekaya,Romdhane; Robbins,Kelly.
In recent years there has been much focus on the use of single nucleotide polymorphism (SNP) fine genome mapping to identify causative mutations for traits of interest; however, many studies focus only on the marginal effects of markers, ignoring potential gene interactions. Simulation studies have show that this approach may not be powerful enough to detect important loci when gene interactions are present. While several studies have examined potential gene interaction, they tend to focus on a small number of SNP markers. Given the prohibitive computation cost of modeling interactions in studies involving a large number SNP, methods need to be develop that can account for potential gene interactions in a computationally efficient manner. This study adopts...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Genome; Simulation; SNP.
Ano: 2009 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-35982009001300011
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Aplicação de marcadores moleculares no melhoramento genético. Repositório Alice
LANZA, M.A.; GUIMARAES, C. T.; SCHUSTER, I..
O melhoramento genetico tem sido um dos grandes responsaveis pelos avancos na agricultura, com o desenvolvimento de cultivares superiores, quer pela maior produtividade, quer pela melhor adaptacao aos ambientes adversos. O sucesso de um programa de melhoramento genetico depende fundamentalmente de algumas etapas como a escolha de genitores que produzam individuos com a melhor combinacao de alelos favoraveis e a selecao de genotipos superiores em populacoes segregantes. Uma potente ferramenta para auxiliar o melhoramento sao os marcadores moleculares, que fornecem um numero ilimitado de polimorfismos com base do DNA e sao independentes dos efeitos ambientais e do estadio fisiologico da planta, permitindo a identificacao precoce e precisa de individuos com...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Alelos; Variabilidade genetica; Polimorfismo; Marcador molecular; Genome; Genetic variability; Molecular marker.
Ano: 2000 URL: http://www.alice.cnptia.embrapa.br/handle/doc/484109
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Araucaria angustifolia chloroplast genome sequence and its relation to other Araucariaceae Genet. Mol. Biol.
Brandão,José Henrique S. G.; Rodrigues,Nureyev F.; Eguiluz,Maria; Guzman,Frank; Margis,Rogerio.
Abstract Araucaria angustifolia is endemic to southern Brazil. Known as Brazilian pine, A. angustifolia is the only native conifer species with economic and social relevance in this country. Due to massive exploitation, it has suffered a significant population decline and currently is classified as critically endangered. This encouraged the scientific community to investigate genetic features in Brazilian pine to increase resources for management and preservation. In this work, RNA-Seq data was used to determine the complete nucleotide sequence of the A. angustifolia chloroplast genome (cpDNA). The cpDNA is 146,203 bp in length and contains 122 genes, including 80 protein-coding genes, 5 ribosomal RNA genes, and 37 tRNA genes. Coding regions comprise...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Brazilian pine; Plastid; Genome; CpDNA; Conservation.
Ano: 2019 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572019000400671
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Attitudes towards genomic: Research in four Latin American countries Electron. J. Biotechnol.
Rodríguez Yunta,Eduardo; Valdebenito Herrera,Carolina; Misseroni,Adelio; Fernández Milla,Lautaro; Outomuro,Delia; Schiattino Lemus,Irene; Ferrer Lues,Marcela; Lolas Stepke,Fernando.
The present reflection refers to data obtained about the social representations of genomic research and its applications through interviews with legislators and lawyers, biomedical researchers and civilians and the review of scientific and legal literature in four Latin American countries: Argentine, Chile, Mexico and Peru. Several issues are addressed: little access to prevention and therapeutic methods, lack of equity in health benefits, commercialization of gene sequences through patents which leads to commercial exploitation of underdeveloped countries, the possibility of physical or psychological damage or genetic discrimination, the possibility of genetic modifications or abortion for eugenic reasons, the necessity of safeguarding confidentiality,...
Tipo: Journal article Palavras-chave: Cloning; Genome; Social representations; Transgenic.
Ano: 2005 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582005000300003
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Avaliação citogenética da microsporogênese de uma nova variedade de milho (BRS 4150). Repositório Alice
CAETANO-PEREIRA, C.M.; SILVA, P.R.; SILVA, N.; MEIRELLES, W. F.; BRASIL, E.M.; PAGLIARINI, M.S..
2000
Tipo: Artigo em anais de congresso (ALICE) Palavras-chave: Milho; Meiose; Genoma; Genome; Meiosis; Zea mays; Maize.
Ano: 2000 URL: http://www.alice.cnptia.embrapa.br/handle/doc/484042
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