Transcriptomics,Multiomics

Dataset Information

6

Transcription profiling by array of injured Arabidopsis after infection with different strains of Agrobacterium tumefaciens


ABSTRACT: This study focuses on responses of the host plant to infection and transformation with Agrobacterium tumefaciens. Genome wide changes in gene expression were integrated with the alterations in metabolite levels six days after inoculation of agrobacteria. Plants were infected with the virulent strain C58, harboring a T-DNA, or with strain GV3101, containing a disarmed Ti-plasmid. This allows discrimination between signals which derive from the bacterial pathogen and the T-DNA encoded genes. Experiment Overall Design: The bases of Arabidopsis thaliana (WS-2) inflorescence stalks were wounded and immediately infected with Agrobacterium tumefaciens or mock-infected for six days. Stalks of intact plants were inoculated with the oncogenic strain C58 (C58 6dpi 1 to 3) or the non-virulent strain GV3101 (GV3101 6dpi 1 to 3) to provide conditions close to nature. The gene expression data of three independent experiments of infected material were compared with three non-infected samples (reference 6dpi 1 to 3). Differential gene expression was determined by applying the LIMMA package (Linear Models for Microarray Data; Smyth, G.K. (2004) Applic. Genet. Mol. Biol. 3, Article 3; http://www.bepress.com/sagmb/vol3/iss1/art3/).

INSTRUMENT(S): 418 [Affymetrix]

ORGANISM(S): Arabidopsis thaliana  

SUBMITTER: Rosalia Deeken  

PROVIDER: E-GEOD-13930 | ArrayExpress | 2009-12-02

SECONDARY ACCESSION(S): GSE13930PRJNA114609

REPOSITORIES: GEO, ArrayExpress

Dataset's files

Source:
Action DRS
E-GEOD-13930.idf.txt Idf
E-GEOD-13930.processed.1.zip Processed
E-GEOD-13930.raw.1.zip Raw
E-GEOD-13930.sdrf.txt Txt
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Publications

An integrated view of gene expression and solute profiles of Arabidopsis tumors: a genome-wide approach.

Deeken Rosalia R   Engelmann Julia C JC   Efetova Marina M   Czirjak Tina T   Müller Tobias T   Kaiser Werner M WM   Tietz Olaf O   Krischke Markus M   Mueller Martin J MJ   Palme Klaus K   Dandekar Thomas T   Hedrich Rainer R  

The Plant cell 20061215 12


Transformation of plant cells with T-DNA of virulent agrobacteria is one of the most extreme triggers of developmental changes in higher plants. For rapid growth and development of resulting tumors, specific changes in the gene expression profile and metabolic adaptations are required. Increased transport and metabolic fluxes are critical preconditions for growth and tumor development. A functional genomics approach, using the Affymetrix whole genome microarray (approximately 22,800 genes), was  ...[more]

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