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Series GSE56658 Query DataSets for GSE56658
Status Public on Apr 10, 2014
Title Transcription profiling by array of the response of Arabidopsis cultivar Columbia etiolated seedlings and undifferentiated tissue culture cells to the spaceflight environment
Organism Arabidopsis thaliana
Experiment type Expression profiling by array
Summary transcriptome response of Arabidopsis cultivar Columbia etiolated seedlings and undifferentiated tissue culture cells to the spaceflight environment
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.

This experiment was launched on STS-131 in 2010 and was supported by NASA grant NNX10AF45G - The Impact of Spaceflight on Arabidopsis: Deep Sequencing and DNA Arrays as Collaborative Readouts of the Transcriptome of Arabidopsis Seedlings and Undifferentiated Cells in Space to A-L. Paul and R.J. Ferl.
 
Overall design undifferentiated cultured cells total samples 12: spaceflight 6 samples vs unit gravity ground control' 6 samples; etiolated seedlings total samples 12: spaceflight 6 samples vs unit gravity ground control' 6 samples
 
Contributor(s) Paul A, Ferl RJ, Zupanska AK, Ostrow DT, Zhang Y, Sun Y, Li J
Citation(s) 22221117, 23258370
Submission date Apr 09, 2014
Last update date Jun 12, 2017
Contact name Robert J. Ferl
E-mail ferllabuf@gmail.com
Phone 352-273-8030
Organization name University of Florida
Department Horticultural Sciences
Lab Ferl's lab
Street address 1301 Fifield Hall PO Box 110690
City Gainesville
State/province Florida
ZIP/Postal code 32611
Country USA
 
Platforms (1)
GPL198 [ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array
Samples (24)
GSM1366431 FLIGHT BRIC B PDFU-2 083 tissue
GSM1366432 FLIGHT BRIC B PDFU-3 104 tissue
GSM1366433 FLIGHT BRIC B PDFU-4 033 tissue
Relations
BioProject PRJNA244316

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE56658_Processed_Result_16STissue_BRIC16_Ferl.txt.gz 1.5 Mb (ftp)(http) TXT
GSE56658_Processed_Result_16Seedling_BRIC16_Ferl.txt.gz 1.5 Mb (ftp)(http) TXT
GSE56658_Processed_Result_BRIC16_Ferl_file_description.txt.gz 577 b (ftp)(http) TXT
GSE56658_RAW.tar 33.4 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table
Processed data is available on Series record

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