E-GEOD-10340 - Transcription profiling of soybean nodulation by Bradyrhizobium japonicum

Status
Submitted on 31 January 2008, released on 4 February 2008, last updated on 2 May 2014
Organism
Glycine max
Samples (112)
Arrays (2)
Protocols (23)
Description
Legumes interact with nodulating bacteria that convert atmospheric nitrogen into ammonia for plant use. This nitrogen fixation takes place within root nodules that form after infection of root hairs by compatible rhizobia. Using cDNA microarrays, we monitored gene expression in soybean (Glycine max) inoculated with the nodulating bacterium Bradyrhizobium japonicum 4, 8, and 16 days after inoculation (dai), time points that coincided with nodule development and the onset of nitrogen fixation. This experiment identified several thousand genes that were differentially expressed in response to B. japonicum inoculation. Expression of 27 genes was analyzed by qRT-PCR and their expression patterns mimicked the microarray results confirming integrity of analyses. The microarray results suggest that B. japonicum reduces plant defense responses during nodule development. In addition, the data revealed a high level of regulatory complexity (transcriptional, post-transcriptional, translational, post-translational) that is likely essential for development of the symbiosis and adjustment to an altered nutritional status. Keywords = symbiosis Keywords = nodulation Keywords = rhizobium Keywords = defense Keywords = ANOVA Keywords = plant loop design, 7 samples, 7 comparison, 2 technical repeats including dye swaps, 4 biological repeats
Experiment type
unknown experiment type 
Contacts
min li, Bernarda Calla, Dong Xu, Gary Stacey, Laurent Brechenmacher, Lila O Vodkin, Marc Libault, Marisol Benitez, Mei P Lee, Min Li, Moon-Young Kim, Steven J Clough, Suk-Ha Lee, Trupti Joshi
Citation
Transcription profiling of soybean nodulation by Bradyrhizobium japonicum. Brechenmacher L, Kim MY, Benitez M, Li M, Joshi T, Calla B, Lee MP, Libault M, Vodkin LO, Xu D, Lee SH, Clough SJ, Stacey G.
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-10340.idf.txt
Sample and data relationshipE-GEOD-10340.sdrf.txt
Raw data (1)E-GEOD-10340.raw.1.zip
Processed data (1)E-GEOD-10340.processed.1.zip
Array designsA-GEOD-3015.adf.txt, A-GEOD-6009.adf.txt
R ExpressionSetE-GEOD-10340.eSet.r
Links