LegumeIP V3: From Models to Crops - An Integrative Gene Discovery Platform for Translational Genomics in Legumes

  • [A. thaliana (transcript)]
  • Detail of Experiment mapped on Arabidopsis thaliana col Araport11

Details

NameTranscriptome profiling of ozone responses of Arabidopsis thaliana
DescriptionMany Arabidopsis thaliana accession show sensitvity to the air pollutant ozone, including the accession Cvi-0 from the Cape Verde Islands. To understand and assist in genetic mapping of loci causing the ozone sensitvity of Cvi-0, transcript profiling was performed in Cvi-0, the tolerant Col-0, and a near isogenic line (Col-S) where ozone sensitivity was introgressesed from Cvi-0 to Col-0 through eight rounds of backcrossing. Overall design: The near isogenic line Col-S and its parents Col-0 and Cvi-0 were grown for three weeks and treated with 350 ppb ozone for two hours. The whole rosettas were harvested from controls and and ozone treated plants. Three separate biological repeats used for RNA-seq analysis.
ContactUniversity of Helsinki
XrefPRJNA397570
Reference
Conditions6
SpeciesArabidopsis thaliana
Metadata export .CSV   .JSON

Analysis

Mapped Genomes Araport11    
Expression Analysis Expression Profile /  Differential Expression /  Co-expression

Conditions

Name Genotype Mutation Stage Tissue Treatment Level Time Samples Xref Download alignments
Col-0_350ppbOzone2hr Col-0 3 weeks old plants whole rosette 350 ppb ozone exposure for 2hr
  • Col-0_350ppbOzone2hr_1
  • Col-0_350ppbOzone2hr_2
  • Col-0_350ppbOzone2hr_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
Col-0_control Col-0 3 weeks old plants whole rosette control
  • Col-0_control_1
  • Col-0_control_2
  • Col-0_control_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
Col-S_350ppbOzone2hr Col-S 3 weeks old plants whole rosette 350 ppb ozone exposure for 2hr
  • Col-S_350ppbOzone2hr_1
  • Col-S_350ppbOzone2hr_2
  • Col-S_350ppbOzone2hr_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
Col-S_control Col-S 3 weeks old plants whole rosette control
  • Col-S_control_1
  • Col-S_control_2
  • Col-S_control_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
Cvi-0_350ppbOzone2hr Cvi-0 3 weeks old plants whole rosette 350 ppb ozone exposure for 2hr
  • Cvi-0_350ppbOzone2hr_1
  • Cvi-0_350ppbOzone2hr_2
  • Cvi-0_350ppbOzone2hr_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
Cvi-0_control Cvi-0 3 weeks old plants whole rosette control
  • Cvi-0_control_1
  • Cvi-0_control_2
  • Cvi-0_control_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi