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Altered expression of the caffeine synthase gene in a naturally caffeine-free mutant of Coffea arabica. Repositório Alice
MALUF, M. P.; SILVA, C. C. da; OLIVEIRA, M. de P. A. de; TAVARES, A. G.; SILVAROLLA, M. B.; GUERREIRO FILHO, O..
In this work, we studied the biosynthesis of caffeine by examining the expression of genes involved in this biosynthetic pathway in coffee fruits containing normal or low levels of this substance. The amplification of gene-specific transcripts during fruit development revealed that low-caffeine fruits had a lower expression of the theobromine synthase and caffeine synthase genes and also contained an extra transcript of the caffeine synthase gene. This extra transcript contained only part of exon 1 and all of exon 3. The sequence of the mutant caffeine synthase gene revealed the substitution of isoleucine for valine in the enzyme active site that probably interfered with enzymatic activity. These findings indicate that the absence of caffeine in these...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Coffee; Cup quality; Differential expression; Naturally decaffeinated.
Ano: 2009 URL: http://www.alice.cnptia.embrapa.br/handle/doc/880373
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Altered expression of the caffeine synthase gene in a naturally caffeine-free mutant of Coffea arabica Genet. Mol. Biol.
Maluf,Mirian Perez; Silva,Carla Cristina da; Oliveira,Michelle de Paula Abreu de; Tavares,Aline Gomes; Silvarolla,Maria Bernadete; Guerreiro Filho,Oliveiro.
In this work, we studied the biosynthesis of caffeine by examining the expression of genes involved in this biosynthetic pathway in coffee fruits containing normal or low levels of this substance. The amplification of gene-specific transcripts during fruit development revealed that low-caffeine fruits had a lower expression of the theobromine synthase and caffeine synthase genes and also contained an extra transcript of the caffeine synthase gene. This extra transcript contained only part of exon 1 and all of exon 3. The sequence of the mutant caffeine synthase gene revealed the substitution of isoleucine for valine in the enzyme active site that probably interfered with enzymatic activity. These findings indicate that the absence of caffeine in these...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Coffee; Cup quality; Differential expression; Naturally decaffeinated.
Ano: 2009 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572009000400023
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Bioinformatics analysis of the gene expression profile in Bladder carcinoma Genet. Mol. Biol.
Xiao,Jing; Yiqing,Qiu.
Bladder carcinoma, which has the ninth highest incidence among malignant tumors in the world, is a complex, multifactorial disease. The malignant transformation of bladder cells results from DNA mutations and alterations in gene expression levels. In this work, we used a bioinformatics approach to investigate the molecular mechanisms of bladder carcinoma. Biochips downloaded from the Gene Expression Omnibus (GEO) were used to analyze the gene expression profile in urinary bladder cells from individuals with carcinoma. The gene expression profile of normal genomes was used as a control. The analysis of gene expression revealed important alterations in genes involved in biological processes and metabolic pathways. We also identified some small molecules...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Bladder carcinoma; Differential expression; Expression profile; Small molecular mimic; Susceptibility forecast.
Ano: 2013 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572013000200021
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Coexpression and transcriptome analyses identify active apomixis-related genes in Paspalum notatum leaves. Repositório Alice
OLIVEIRA, F. A. de; VIGNA, B. B. Z.; SILVA, C. C. da; FAVERO, A. P.; MATTA, F. de P.; AZEVEDO, A. L. S.; SOUZA, A. P. de.
RNA sequencing (RNA-seq) is the most effective method for simultaneously predicting new transcripts and identifying differentially expressed genes among distinct tissues, genotypes, abiotic conditions and developmental stages [1]. Conversely, considering the large amount of data generated from RNA-seq, new approaches that efficiently extract meaningful associations from highly multivariate datasets are needed [2]. Transcriptome coexpression studies can show how complex phenotypes depend on the activity of coordinated batteries of genes [3]. Therefore, the construction of coexpression networks based on gene expression data using correlation metrics provides valuable information regarding alterations in biological systems in response to differential gene...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Differential expression; Gene coexpression network; RNA sequencing; Apomixis; Paspalum.
Ano: 2020 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1121557
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Cowpea-Meloidogyne incognita interaction: root proteomic analysis during early stages of nematode infection. Repositório Alice
VILLETH, G. R. C.; CARMO, L. S. T.; SILVA, L. P.; FONTES, W.; GRYNBERG, P.; SARAIVA, M.; BRASILEIRO, A. C. M.; CARNEIRO, R. M. D.; OLIVEIRA, J. T. A.; GROSSI-DE-SA, M. F.; MEHTA, A..
2015
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: 2-DE; Differential expression; MS; Nematode?plant interaction; Plant proteomics.
Ano: 2015 URL: http://www.alice.cnptia.embrapa.br/handle/doc/1023130
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Differential gene expression profiles in peripheral blood in Northeast Chinese Han people with acute myocardial infarction Genet. Mol. Biol.
Fan,Lin; Meng,Heyu; Guo,Xudong; Li,Xiangdong; Meng,Fanbo.
Abstract This study aimed to use gene chips to investigate differential gene expression profiles in the occurrence and development of acute myocardial infarction (AMI). The study included 12 AMI patients and 12 healthy individuals. Total mRNA of peripheral bloodwas extracted and reversed-transcribed to cDNA for microarray analysis. After establishing two pools with three subjects each (3 AMI patients and 3 healthy individuals), the remaining samples were used for RT-qPCR to confirm the microarray data. From the microarray results, seven genes were randomly selected for RT-qPCR. RT-qPCR results were analyzed by the 2-ΔΔCt method. Microarray analysis showed that 228 genes were up- regulated and 271 were down-regulated (p ≤ 0.05, |logFC| > 1). Gene...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Acute myocardial infarction; RNA; Differential expression.
Ano: 2018 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572018000100059
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Effects of somatic embryogenesis on gene expression of cloned coffee heterozygous hybrids. Repositório Alice
OLIVEIRA, K. C. de; GUIMARÃES, P. de S.; BAZIOLI, J. M.; MARTINATI, J. C.; SANTOS, M. M. dos; PADILHA, L.; GUERREIRO-FILHO, O.; MALUF, M. P..
Cloning of superior coffee plants by somatic embryogenesis can assist breeding programs on reducing the cost and time for launch of new cultivars. This study aimed to evaluate the efficiency of this methodology for cloning coffee trees with high heterozygosity, and to gather evidence that clonal progenies are faithful copies of mother plants. Selected plants IAC1 and IAC 2 from Coffea arabica breeding populations, resistant to leaf rust and leaf miner, respectively, were cloned via indirect somatic embryogenesis. Expression of selected genes involved in biological processes potentially affected by in vitro cultivation was evaluated by quantitative analysis. Genes encoding proteins associated with maintenance of DNA integrity and control of cell cycle...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: In vitro cultivation; Differential expression; Coffea Arábica; Somaclonal variation.
Ano: 2019 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1113261
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Gene expression profile during coffee fruit development and identification of candidate markers for phenological stages. Repositório Alice
GASPARI-PEZZOPANE, C. de; BONTURI, N.; GUERREIRO FILHO, O.; FAVARIN, J.L.; MALUF, M. P..
The objective of this work was to identify genes that could be used as suitable markers for molecular recognition of phenological stages during coffee (Coffea arabica) fruit development. Four cultivars were evaluated as to their differential Expression of genes associated to fruit development and maturation processes. GEne expression was characterized by both semi?quantitative and quantitative RT?PCR, in fruit harvested at seven different developmental stages, during three different seasons. No size polymorphisms or differential expression were observed among the cultivars for the evaluated genes; however, distinct expression profiles along fruit development were determined for each gene. Four out of the 28 evaluated genes exhibited a regular expression...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Cup quality; Differential expression; Fruit phenology; Qualidade de bebida; Coffea arabica; Ripening.
Ano: 2012 URL: http://www.alice.cnptia.embrapa.br/handle/doc/1044180
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Gene expression profile during coffee fruit development and identification of candidate markers for phenological stages PAB
Gaspari-Pezzopane,Cristiana de; Bonturi,Nemailla; Guerreiro Filho,Oliveiro; Favarin,José Laércio; Maluf,Mirian Perez.
The objective of this work was to identify genes that could be used as suitable markers for molecular recognition of phenological stages during coffee (Coffea arabica) fruit development. Four cultivars were evaluated as to their differential expression of genes associated to fruit development and maturation processes. Gene expression was characterized by both semi-quantitative and quantitative RT-PCR, in fruit harvested at seven different developmental stages, during three different seasons. No size polymorphisms or differential expression were observed among the cultivars for the evaluated genes; however, distinct expression profiles along fruit development were determined for each gene. Four out of the 28 evaluated genes exhibited a regular expression...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Coffea arabica; Cup quality; Differential expression; Fruit phenology; Ripening; QRT-PCR.
Ano: 2012 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-204X2012000700014
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Gonad transcriptome analysis of pearl oyster Pinctada margaritifera: identification of potential sex differentiation and sex determining genes ArchiMer
Teaniniuraitemoana, Vaihiti; Huvet, Arnaud; Levy, Peva; Klopp, Christophe; Lhuillier, Emeline; Gaertner-mazouni, Nabila; Gueguen, Yannick; Le Moullac, Gilles.
Background Black pearl farming is based on culture of the blacklip pearl oyster Pinctada margaritifera (Mollusca, lophotrochozoa), a protandrous hermaphrodite species. At first maturation, all individuals are males. The female sex appears progressively from two years old, which represents a limitation for broodstock conditioning for aquaculture production. In marine mollusks displaying hermaphroditic features, data on sexual determinism and differentiation, including the molecular sex determining cascade, are scarce. To increase genomic resources and identify the molecular mechanisms whereby gene expression may act in the sexual dimorphism of P. margaritifera, we performed gonad transcriptome analysis. Results The gonad transcriptome of P. margaritifera...
Tipo: Text Palavras-chave: Pinctada margaritifera; Gametogenesis; Transcriptome; Differential expression; Sex determinism.
Ano: 2014 URL: http://archimer.ifremer.fr/doc/00201/31194/29593.pdf
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HIGH EXPRESSION OF HMOX1 IN BLUE-SHELLED CHICKENS IS ASSOCIATED WITH A TG HAPLOTYPE Rev. Bras. Ciênc. Avic.
Wang,Z; Deng,X; Wang,AI; Liu,R.
ABSTRACTHMOX1 is an important gene in biosynthesis of the eggshell pigment of blue eggs. Previous studies found that HMOX1 is highly expressed in the shell gland of hens laying blue eggs (BlueH) compared with hens laying brown eggs (BrownH); however, the reasons for the differential expression are unclear. In this study five single nucleotide polymorphism (SNP) in HMOX1 were genotyped in 111 BlueH and 115 BrownH. The association of haplotypes of these SNP with the blue egg phenotype was tested. Haplotype-specific expression of HMOX1 was detected in the shell gland. The interaction of sequence variants and transcription factors was analyzed using electrophoretic mobility shift assay (EMSA). A TG haplotype covering upstream 1.4 kb region of HMOX1 was...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Chicken; Blue egg; Biliverdin; HMOX1; Differential expression.
Ano: 2015 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-635X2015000300267
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Identification of differentially expressed genes of Xanthomonas axonopodis pv. citri by representational difference analysis of cDNA Genet. Mol. Biol.
Mehta,Angela; Rosato,Yoko B..
Xanthomonas axonopodis pv. citri is a phytopathogenic bacterium responsible for citrus canker, a serious disease which causes severe losses in citriculture around the world. In this study we report the differential expression of X. axonopodis pv. citri in response to specific treatments by using Representational Difference Analysis of cDNA (cDNA RDA). cDNAs from X. axonopodis pv. citri cultured in the presence of leaf extract of the host plant (Citrus sinensis), in vivo, as well as in the complex medium were hybridized against cDNA of the bacterium grown in the minimal medium. Sequencing of the difference products obtained after the second and third hybridizations revealed a total of 37 distinct genes identified by homology searches in the genome of X....
Tipo: Info:eu-repo/semantics/article Palavras-chave: Citrus canker; Differential expression; Leaf extract; In vivo.
Ano: 2005 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572005000100024
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Identification of genes associated with shell color in the black-lipped pearl oyster, Pinctada margaritifera ArchiMer
Lemer, Sarah; Saulnier, Denis; Gueguen, Yannick; Planes, Serge.
Background: Color polymorphism in the nacre of pteriomorphian bivalves is of great interest for the pearl culture industry. The nacreous layer of the Polynesian black-lipped pearl oyster Pinctada margaritifera exhibits a large array of color variation among individuals including reflections of blue, green, yellow and pink in all possible gradients. Although the heritability of nacre color variation patterns has been demonstrated by experimental crossing, little is known about the genes involved in these patterns. In this study, we identify a set of genes differentially expressed among extreme color phenotypes of P. margaritifera using a suppressive and subtractive hybridization (SSH) method comparing black phenotypes with full and half albino individuals....
Tipo: Text Palavras-chave: Differential expression; Biomineralization; Nacre; Pearl; Pigmentation; Albino.
Ano: 2015 URL: http://archimer.ifremer.fr/doc/00275/38627/37167.pdf
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Identification of host proteins modulated by the virulence factor AC2 of tomato chlorotic mottle virus in Nicotiana benthamiana. Repositório Alice
CARMO, L. S. T.; RESENDE, R. O.; SILVA, L. P. da; RIBEIRO, S. da G.; MEHTA, A..
bitstream/item/156232/1/Carmo-et-al-2013-PROTEOMICS.pdf
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Differential expression; Plant proteomics; Plant?virus interaction; ToCMoV.
Ano: 2013 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/979952
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In silico evaluation of the Eucalyptus transcriptome Genet. Mol. Biol.
Vicentini,Renato; Sassaki,Flávio T.; Gimenes,Marcos A.; Maia,Ivan G.; Menossi,Marcelo.
The expressed sequence tags (ESTs) produced in the Forests project provide an invaluable opportunity to assess the Eucalyptus transcriptome. Besides providing information on the different proteins produced by this plant, it is possible to infer gene expression profiles because non-normalized cDNA libraries were used. The EST frequency from any gene is correlated to the transcript levels in the tissues from which the cDNA libraries were constructed. The goal of this work was to identify Eucalyptus genes that showed either differential expression pattern or were ubiquitously expressed in the tissues sampled in the Forests project. Six robust statistical tests and very restrictive rules were applied to gain confidence in the in silico data aiming to avoid...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Transcriptome; Eucalyptus; Tissue-specific; Statistics; Differential expression.
Ano: 2005 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572005000400002
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Introduction of the rd29A: AtDREB2A CA gene into soybean (Glycine max L. Merril) and its molecular characterization in leaves and roots during dehydration Genet. Mol. Biol.
Engels,Cibelle; Fuganti-Pagliarini,Renata; Marin,Silvana Regina Rockenbach; Marcelino-Guimarães,Francismar Corrêa; Oliveira,Maria Cristina Neves; Kanamori,Norihito; Mizoi,Junya; Nakashima,Kazuo; Yamaguchi-Shinozaki,Kazuko; Nepomuceno,Alexandre Lima.
The loss of soybean yield to Brazilian producers because of a water deficit in the 2011-2012 season was 12.9%. To reduce such losses, molecular biology techniques, including plant transformation, can be used to insert genes of interest into conventional soybean cultivars to produce lines that are more tolerant to drought. The abscisic acid (ABA)-independent Dehydration Responsive Element Binding (DREB) gene family has been used to obtain plants with increased tolerance to abiotic stresses. In the present study, the rd29A:AtDREB2A CA gene from Arabidopsis thaliana was inserted into soybean using biolistics. Seventy-eight genetically modified (GM) soybean lines containing 2-17 copies of the AtDREB2A CA gene were produced. Two GM soybean lines (P1397 and...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Arabidopsis; Differential expression; Genetically modified organism; Water deficit.
Ano: 2013 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572013000400015
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LDHB gene has allele-specific expression in liver of Nelore cattle extremes for feed efficiency. Repositório Alice
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: Resumo em anais de congresso (ALICE) Palavras-chave: Cattle; Residual feed intake; Differential expression; MicroRNA.
Ano: 2017 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1075647
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Methodological evaluzation of 2-DE to study root proteomics during nematode infection in cotton and coffee plants. Repositório Alice
FRANCO, O. L.; PEREIRA, J. L.; COSTA, P. H. A. "; ROCHA, T. L.; FR, E. V. S. A.; SA, M. F. G. de; CARNEIRO, R. M. D. G.; CARNEIRO, R. G.; REIS, A. M. dos.
bitstream/item/183190/1/METHODOLOGICAL-EVALUATION-OF-2-DE-TO-STUDY-ROOT-PROTEOMICS-DURING-NEMATODE-INFECTION-IN-COTTON-AND-COFFEE-PLANTS.pdf
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Differential expression; Meloydogine; Staining methods; Two-dimensional gels; Proteins.
Ano: 2010 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/882810
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Proteomic analysis of upland rice (Oryza sativa L.) exposed to intermittent water deficit. Repositório Alice
RABELLO, F. R.; VILLETH, G. R. C.; RABELLO, A. R.; RANGEL, P. H. N.; GUIMARAES, C. M.; HUERGO, L. F.; SOUZA, E. M.; PEDROSA, F. O.; FERREIRA, M. E.; MEHTA, A..
2014
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Differential expression; Upland rice; 2-DE; Mass spectrometry.
Ano: 2014 URL: http://www.alice.cnptia.embrapa.br/handle/doc/1006453
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Transcriptional analyses of Trypanosoma brucei gambiense from infected mice and in vitro culture OAK
Kuboki, Noritaka; Kibe, Michael K; Thekisoe, Oriel M. M.; Sugimoto, Chihiro; Inoue, Noboru.
With the hypothesis that African trypanosomes could have in vivo specific genes for adaptation to host’s environment, the present study was conducted by using suppressive subtractive hybridization (SSH) technique to seek the highly expressed genes especially in host. A total of 328 clones from the in vivo SSH library and that of 160 clones from the in vitro SSH library were analyzed in order to determine their expression levels, but none of the above-mentioned genes showed differential expression. This indicates that no trypanosome genes could be differentially expressed either the in vivo or in vitro propagated trypanosomes. Alternatively, there might be limitation for detecting specifically expressed genes in African trypanosomes using this method,...
Palavras-chave: Differential expression; Infection; Trypanosoma brucei.
Ano: 2007 URL: http://ir.obihiro.ac.jp/dspace/handle/10322/1052
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