E-MTAB-1009 - Transcription profiling by array of the response of Arabidopsis cultivar Columbia etiolated seedlings and undifferentiated tissue culture cells to the spaceflight environment

Status
Released on 8 March 2012, last updated on 24 March 2017
Organism
Arabidopsis thaliana
Samples (24)
Array (1)
Protocols (6)
Description
We address a key baseline question of whether gene expression changes are induced by the orbital environment, and then we ask whether undifferentiated cells, cells presumably lacking the typical gravity response mechanisms, perceive spaceflight. Arabidopsis seedlings and undifferentiated cultured Arabidopsis cells were launched in April, 2010, as part of the BRIC-16 flight experiment on STS-131. Biologically replicated DNA microarray and averaged RNA digital transcript profiling revealed several hundred genes in seedlings and cell cultures that were significantly affected by launch and spaceflight. The response was moderate in seedlings; only a few genes were induced by more than 7-fold, and the overall intrinsic expression level for most differentially expressed genes was low. In contrast, cell cultures displayed a more dramatic response, with dozens of genes showing this level of differential expression, a list comprised primarily of heat shock-related and stress-related genes. This baseline transcriptome profiling of seedlings and cultured cells confirms the fundamental hypothesis that survival of the spaceflight environment requires adaptive changes that are both governed and displayed by alterations in gene expression. The comparison of intact plants with cultures of undifferentiated cells confirms a second hypothesis: undifferentiated cells can detect spaceflight in the absence of specialized tissue or organized developmental structures known to detect gravity.
Experiment types
transcription profiling by array, growth condition, individual genetic characteristics, stimulus or stress
Contacts
Citation
Spaceflight transcriptomes: unique responses to a novel environment. Paul AL, Zupanska AK, Ostrow DT, Zhang Y, Sun Y, Li JL, Shanker S, Farmerie WG, Amalfitano CE, Ferl RJ. , Europe PMC 22221117
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-MTAB-1009.idf.txt
Sample and data relationshipE-MTAB-1009.sdrf.txt
Raw data (1)E-MTAB-1009.raw.1.zip
Processed data (1)E-MTAB-1009.processed.1.zip
Additional data (1)E-MTAB-1009.additional.1.zip
Array designA-AFFY-2.adf.txt
Links