NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE95373 Query DataSets for GSE95373
Status Public on Feb 24, 2018
Title Plant development on ISS differes from the development on the ground and is influenced by the genetic background.
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Summary The development of Col-0 and WS plants on orbit differs from that on the ground as demonstrated by the comparison of the gene expression profiles between 4 days old to 8 days old plant in the two environments. The Col-0 plants used different genes reflecting different physiological processes than WS plants, suggesting the role of the genetic background in the developmental decisions. The 4 days old Col-0 plant in orbit showed deficit in wax and suberin production relatively to the 8 days old plants, the difference unregistered on the ground. There was more dramatic difference in the overexpression of the root system development and anatomical structure development genes in 8 days old plants than in 4 days old plant in both genotypes on the ground than in flight, implying smaller root developmental gap between 4 days and 8 days old roots in orbit. The WS plant uniquely showed overexpression of the photosynthesis related genes in the 4 days old roots relative to 8 days old root in the spaceflight environment but not on the ground. The seeds germinated in the novel growth environment of ISS implemented different developmental strategies as captured by the genes expression patterns, than seeds developing on the ground.
 
Overall design APEX03-2 (Advanced Plant Experiment 03-2) also identified as TAGES-Isa (Transgenic Arabidopsis Gene Expression System—Intracellular Signaling Architecture) was launched on SpaceX mission CRS-5 on 10 January 2015. Dry, sterilized Arabidopsis seeds were planted aseptically on the surface of 10-cm2 solid media plates and remained dormant until removed from cold stowage and exposed to light at the initiation of the experiment on the ISS (International Space Station). The plates were grown in the Vegetable Production System (VPS/Veggie) hardware on the Columbus Module of the ISS with the overhead LED lighting of the VPS. At four or for the second experimental set at eight days, seedlings were harvested by an astronaut into KFT (Kennedy Fixation Tube) containing RNAlater solutions. Upon return to Earth, the harvested material was used to compare the transcriptomes of each genotype and each age using RNAseq technology. The patterns of gene expression was compared between treatments (spaceflight versus ground control) within each genotype of same age or between two ages within same genotype and within same treatment. For 4 day old roots 5-8 roots were combined to serve as one biological replica. For 8 day old roots 2-3 roots were used to form one biological replica. In each case the four biological replicas were used for the transcriptomic analysis.
 
Contributor(s) Paul A, Zupanska AK, Ferl RJ
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Feb 24, 2017
Last update date May 15, 2019
Contact name Robert J. Ferl
E-mail(s) 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)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (32)
GSM2509415 Ground Control, 4 days old, Col-0 Rep1
GSM2509416 Ground Control, 4 days old, Col-0 Rep2
GSM2509417 Ground Control, 4 days old, Col-0 Rep3
Relations
BioProject PRJNA376779
SRA SRP100712

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
GSE95373_FLT_4d_Col-0_to_FLT_8d_Col-0.xlsx 157.9 Kb (ftp)(http) XLSX
GSE95373_FLT_4d_Col-0_to_GC_4d_Col-0.xlsx 167.2 Kb (ftp)(http) XLSX
GSE95373_FLT_4d_WS_to_FLT_8d_WS.xlsx 127.1 Kb (ftp)(http) XLSX
GSE95373_FLT_4d_WS_to_GC_4d_WS.xlsx 22.1 Kb (ftp)(http) XLSX
GSE95373_FLT_8d_Col-0_to_GC_8d_Col-0.xlsx 97.6 Kb (ftp)(http) XLSX
GSE95373_FLT_8d_WS_to_GC_8d_WS.xlsx 106.4 Kb (ftp)(http) XLSX
GSE95373_GC_4d_Col-0_to_GC_8d_Col-0.xlsx 256.6 Kb (ftp)(http) XLSX
GSE95373_GC_4d_WS_to_GC_8d_WS.xlsx 130.0 Kb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap