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Registros recuperados: 8
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Analysis of CATMA transcriptome data identifies hundreds of novel functional genes and improves gene models in the Arabidopsis genome Inra
Aubourg, S.; Martin-Magniette, M.L.; Brunaud, V.; Taconnat, L.; Bitton, F.; Balzergue, S.; Jullien, P.E.; Ingouff, M.; Thareau, V.; Schiex, T.; Lecharny, A.; Renou, J.P..
Background: Since the finishing of the sequencing of the Arabidopsis thaliana genome, the Arabidopsis community and the annotator centers have been working on the improvement of gene annotation at the structural and functional levels. In this context, we have used the large CATMA resource on the Arabidopsis transcriptome to search for genes missed by different annotation processes. Probes on the CATMA microarrays are specific gene sequence tags (GSTs) based on the CDS models predicted by the Eugene software. Among the 24 576 CATMA v2 GSTs, 677 are in regions considered as intergenic by the TAIR annotation. We analyzed the cognate transcriptome data in the CATMA resource and carried out data-mining to characterize novel genes and improve gene models....
Tipo: Journal Article Palavras-chave: ADNC; EXPRESSION DES GENES; SEQUENCE NUCLEOTIDIQUE; ARABIDOPSIS THALIANA; GENOME; MODELE; METHODE STATISTIQUE; PROTEINE; TRANSCRIPTION; ARN MESSAGER; PCR; RT-PCR CDNA MICROARRAY DATA; EXPRESSION PROFILES; SEQUENCE TAGS; ANNOTATION; THALIANA; NORMALIZATION; REGIONS; TOOLS.
Ano: 2007 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PROD20116115e9a4&uri=/notices/prodinra1/2011/03/
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Arabidopsis HAF2 gene encoding TATA-binding protein (TBP)-associated factor TAF1, is required to integrate light signals to regulate gene expression and growth Inra
Bertrand, C.; Benhamed, M.; Li, Y.F.; Ayadi, M.; Lemonnier, G.; Renou, J.P.; Delarue, M.; Zhou, D.X..
Plant growth and development are sensitive to light. Light-responsive DNA-binding transcription factors have been functionally identified. However, how transcription initiation complex integrates light signals from enhancer-bound transcription factors remains unknown. In this work, we characterized mutations within the Arabidopsis HAF2 gene encoding TATA-binding protein-associated factor TAF1 (or TAFII250). The mutation of HAF2 induced decreases on chlorophyll accumulation, light-induced mRNA levels, and promoter activity. Genetic analysis indicated that HAF2 is involved in the pathways of both red/far-red and blue light signals. Double mutants between haf2-1 and hy5-1, a mutation of a light signaling positive DNA-binding transcription factor gene, had a...
Tipo: Journal Article Palavras-chave: ARABIDOPSIS THALIANA; GENE TAF1; MUTATION HAF2; RYTHME CIRCADIEN; HISTONE; EXPRESSION DES GENES.
Ano: 2005 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PUB0500029051107283&uri=/notices/prodinra1/2010/11/
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CATdb: a public access to Arabidopsis transcriptome data from the URGV-CATMA platform Inra
Gagnot, S.; Tamby, J.P.; Martin-Magniette, M.L.; Bitton, F.; Taconnat, L.; Balzergue, S.; Aubourg, S.; Renou, J.P.; Lecharny, A.; Brunaud, V..
CATdb is a free resource available at http://urgv.evry.inra.fr/CATdb that provides public access to a large collection of transcriptome data for Arabidopsis thaliana produced by a single Complete Arabidopsis Transcriptome Micro Array (CATMA) platform. CATMA probes consist of gene-specific sequence tags (GSTs) of 150500 bp. The v2 version of CATMA contains 24 576 GST probes representing most of the predicted A. thaliana genes, and 615 probes tiling the chloroplastic and mitochondrial genomes. Data in CATdb are entirely processed with the same standardized protocol, from microarray printing to data analyses. CATdb contains the results of 53 projects including 1724 hybridized samples distributed between 13 different organs, 49 different developmental...
Tipo: Journal Article Palavras-chave: CDNA MICROARRAY DATA; SEQUENCE TAGS; INFORMATION; GENOME; NORMALIZATION; BIOLOGY; GENE COMPONENTS ; ADNC; SEQUENCE NUCLEOTIDIQUE; NORMALISATION; BIOLOGIE; ARABIDOPSIS THALIANA; MUTATION; MITOCHONDRIE; CHLOROPLASTE; METHODE STATISTIQUE; EXPRESSION DES GENES.
Ano: 2008 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PROD20111a416d88&uri=/notices/prodinra1/2011/03/
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Cerebral glutamate metabolism In parkinson's disease: An in vivo dynamic C-13 nms study In the rat Inra
Chassain, C.; Bielicki, G.; Donnat, J.P.; Renou, J.P.; Eschalier, A.; Durif, F..
The aim of this work was to explore in vivo the metabolism of the basal ganglia in a rat model of Parkinson's disease. C-13 NMR spectroscopy was used to monitor the synthesis of glutamate/glutamine from [2-C-13] sodium acetate. C-13 label incorporation in glutamate at the carbon C4 was measured in the brain of rats in different physiopathological states and after antiparkinsonian treatment. Studies were performed in control rats (n = 6) and parkinsonian rats (n = 5) in a stable state and after acute levodopa administration (50 mg/kg iv). C-13 NMR spectra recorded using a H-1/C-13 surface probe were acquired in the injured cerebral hemisphere. The sequence was a C-13 acquisition sequence with H-1-decoupling during acquisition, which lasted 17 min, six...
Tipo: Journal Article Palavras-chave: SPECTROSCOPIE RMN; ACETATE DE SODIUM; CERVEAU; MALADIE DE PARKINSON; EXPERIMENTATION IN VIVO; LEVOPODA C-13 NMR SPECTROSCOPY; [2-C-13] SODIUM ACETATE; GLUTAMATE; RAT BRAIN; PARKINSON'S DISEASE.
Ano: 2005 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PROD200723769b10&uri=/notices/prodinra1/2007/07/
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Genome-wide transcriptome profiling of the early cadmium response of Arabidopsis roots and shoots Inra
Herbette, S.; Taconnat, L.; Hugouvieux, V.; Piette, L.; Magniette, M.L.; Cuine, S.; Auroy, P.; Richaud, P.; Forestier, C.; Bourguignon, J.; Renou, J.P.; Vavasseur, A.; Leonhardt, N..
Transcriptional regulation in response to cadmium treatment was investigated in both roots and leaves of Arabidopsis, using the whole genome CATMA microarray containing at least 24,576 independent probe sets. Arabidopsis plants were hydroponically treated with low (5 mu M) or high (50 mu M) cadmium concentrations during 2, 6, and 30 hours. At each time point, Cd level was determined using ICP-AES showing that both plant tissues are able to accumulate the heavy metal. RT-PCR of eight randomly selected genes confirmed the reliability of our microarray results. Analyses of response profiles demonstrate the existence of a regulatory network that differentially modulates gene expression in a tissue- and kinetic-specific manner in response to cadmium. One of the...
Tipo: Journal Article Palavras-chave: TRANSCRIPTION; METABOLISME SOUFRE MICROARRAY; SULFUR METABOLISM.
Ano: 2006 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PROD2007c9bee07b&uri=/notices/prodinra1/2008/08/
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Molecular bases of acclimation to water deficit in poplar mature leaves Inra
Cohen, D.; Hummel, I.; Balzergue, S.; Magniette, M.L.; Tisserant, E.; Le Thiec, D.; Dreyer, E.; Renou, J.P.; Bogeat, M.B..
In temperate zones the global change will include a decrease of summer precipitations inducing longer and more severe drought episodes. Transcriptional regulation plays a major role in regulating many biological processes, we looked for gene expression networks related to drought stress. The final aim is to identify candidate genes for water deficit acclimation and/or adaptation in poplar, a model tree species. The transcriptome of two Populus deltoides x nigra genotypes of contrasted tolerance to water deficit (Carpaccio and Soligo) were analysed in young mature leaves, at various stages and intensities of stress. Four watering treatments were applied: control (CTL) watered to field capacity six-times a day; early response to water deficit (EAR): watering...
Tipo: Meeting Paper Palavras-chave: MOLECULAR; WATER DEFICIT; POPLAR .
Ano: 2009 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PROD2009e68e7beb&uri=/notices/prodinra1/2010/11/
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POPSEC : molecular bases of acclimation to water deficit in poplar Inra
Bogeat, M.B.; Cohen, D.; Le Thiec, D.; Balzergue, S.; Magniette, M.L.; Renou, J.P.; Label, P.; Lesage-Descauses, M.C.; Laurans, F.; Bourgait, I.; Dejardin, A.; Leplé, J.C.; Morabito, D.; Bonhomme, L.; Brignolas, F.; Vincent, D.; Plomion, C.; Hummel, I..
Tipo: Meeting Paper Palavras-chave: POPULUS DELTOIDES X NIGRA.
Ano: 2010 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PROD201125bb676b&uri=/notices/prodinra1/2011/05/
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Relationship of the pelargonium flower break carmovirus (PFBV) coat protein gene with that of other carmoviruses - Brief report Inra
Berthomé, R.; Kusiak, C.; Renou, J.P.; Albouy, J.; Freire, M.A.; Dinant, S..
 The 3′-terminal 1500 nucleotides of the genome of pelargonium flower break carmovirus (PFBV) were sequenced from RT-PCR amplification products. One large ORF was found, encoding a 345 amino acid protein of Mr 37 kDa, which corresponds to the coat protein, as confirmed by immunoprecipitation of products of in vitro transcription and translation. The sequence also included the putative promoter of the coat protein gene subgenomic RNA, as well as its 5′ and 3′ untranslated regions. The PFBV coat protein was more similar to that of saguaro cactus virus and carnation mottle virus than to that of other carmoviruses. Despite the lower level of similarity of CP gene sequences compared to the RNA dependent RNA polymerase (RdRp) gene sequences of small icosahedral...
Tipo: Journal Article Palavras-chave: PFBV; PELARGONIUM FLOWERBREAK CARMOVIRUS; PROTEINE DE SURFACE; COMPARAISON.
Ano: 1998 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PUB9800025519072920&uri=/notices/prodinra1/2010/11/
Registros recuperados: 8
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