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Series GSE185907 Query DataSets for GSE185907
Status Public on Oct 16, 2021
Title Stimulations of the growth rate in elevated CO2 condition were observed in over-expression or RNA interference lines of genes identified by intraspecific variation analyses.
Organism Arabidopsis thaliana
Experiment type Expression profiling by array
Summary In the present study, we sought genes that are involved in the variation of the enhancement of plant growth rate among the Arabidopsis thaliana ecotypes in elevated CO2 condition. We performed a combination analysis of a genome wide association study (GWAS), and a transcriptome study to seek the candidate genes. GWAS was performed using the growth analysis data obtained at Oguchi et al. and the whole genome data from 31 ecotypes. The transcriptome analysis was performed for 6 ecotypes that had contrasting CO2 responses in the growth rate. We analyzed not only annotated coding genes but also small coding genes (30–100 amino acids) identified by Hanada et al., most of which were shown to play roles in cell-to-cell signaling, because it has been shown that a number of small coding genes play significant roles in environmental responses. We also studied the effect of the altered expression of the candidate genes on the plant growth rate in elevated CO2 condition using over-expression (OX) transgenics and RNA interference (RNAi) transgenics. We show that transgenic plants of three genes had significantly higher growth rate under the elevated CO2 condition.
 
Overall design For the microarray analysis, we selected 3 ecotypes that showed a bigger enhancement of growth rate under the elevated CO2 condition (Bur-0, Fei-1 and Sf-1), and 3 ecotypes that showed a smaller enhancement of growth rate under the elevated CO2 condition (Col-0, Te-0 and Yeg-1) according to our growth analysis
 
Contributor(s) Hanada K
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Submission date Oct 14, 2021
Last update date Oct 19, 2021
Contact name Kousuke Hanada
E-mail(s) kohanada@bio.kyutech.ac.jp
Organization name Kyushu Institute Technology
Department Department of Bioscience and Bioinformatics
Street address 680-4 Kawazu
City Iizuka
State/province Fukuoka
ZIP/Postal code 820-8502
Country Japan
 
Platforms (1)
GPL30841 Agilent-022830 RIKEN_AT_sORF0902 [Feature Number version]
Samples (24)
GSM5625456 Te-0_high_CO2, replicate 1
GSM5625457 Te-0_high_CO2, replicate 2
GSM5625458 Te-0_ambient_CO2, replicate 1
Relations
BioProject PRJNA771276

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
GSE185907_RAW.tar 151.1 Mb (http)(custom) TAR (of TXT)
Raw data provided as supplementary file
Processed data included within Sample table

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