E-MEXP-386 - Transcription profiling of Arabidopsis in response to plant growth promoting rhizobacteria

Status
Submitted on 18 July 2005, released on 1 February 2006, last updated on 3 May 2014
Organism
Arabidopsis thaliana
Samples (12)
Array (1)
Protocols (10)
Description
Arabidopsis thaliana transcriptome analysis in response to plant growth promoting rhizobacteria (PGPR)
Experiment 1 : Changes in gene expression profile triggered during root architecture response to Phyllobacterium.
Biological question : Which genes are up- or down-regulated in Arabidopsis thaliana cultivated in vitro with increased lateral root development in response to Phyllobacterium STM196 inoculation.
Experiment description: Seeds of wild-type Arabidopsis thaliana (ecotype Columbia) were surface-sterilized and sown on agar mineral medium (see below). 4 days after storage in the dark at 4C, seedling were cultivated 6 days in a growth chamber (16 h daily, 20-22C) and then transferred on a fresh agar mineral medium inoculated or not with Phyllobacterium STM196 (2.108 cfu/ml). 6 days later, root and leaves were collected, froze on liquid nitrogen and stored at -80C.

Experiment 2 : Changes in gene expression profile triggered during induced systemic resistance (ISR)
Biological question : Which genes are up- or down-regulated during the ISR triggered by a rhizobacteria, in comparison with those affected by a pathogenic interaction.
Experiment description: Seeds were sown on 0.8% (W/V) agar mineral medium (see below). 4 days after storage in the dark at 4C, seedling were cultivated 6 days in a growth chamber (16 h daily, 20-22C) and then transferred on soil inoculated or not with 107 cfu.g-1 of Bradyrhizobium strain ORS278. Three weeks later, 3 leaves per plant were infiltrated with a suspension of Pseudomonas syringae pv. tomato (2.105 cfu.ml-1) or with MgSO4 10 mM alone for control plants. Infiltrated leaves were collected 24h later.

Experiment 3 : Comparison of the effects of 3 rhizobacteria on Arabidopsis thaliana transcriptome
Biological question : which genes are specifically induced or repressed in Arabidopsis thaliana by inoculation of the soil with a PGPR vs a bacteria that has the ability to trigger nodule formation in a Legume.
Experiment description: Seeds of wild-type Arabidopsis thaliana (ecotype Columbia) were surface-sterilized and sown on agar mineral medium. Four days after storage in the dark at 4C, seedlings were cultivated 6 days in a growth chamber (16 h daily, 20-22C) and then transferred on soil inoculated or not with 108 cfu.g-1 of Mesorhizobium loti, or 108 cfu.g-1 of Phyllobacterium STM196, or 107 cfu.g-1 of Bradyrhizobium ORS278.
Experiment types
transcription profiling by array, dye swap, loop, stimulus or stress
Contact
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-MEXP-386.idf.txt
Sample and data relationshipE-MEXP-386.sdrf.txt
Raw data (1)E-MEXP-386.raw.1.zip
Array designA-MEXP-118.adf.txt
Links