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Series GSE185225 Query DataSets for GSE185225
Status Public on Oct 05, 2021
Title Transcriptomics study of a temperature sensitive mutant (E170K, shot2) in CstF77, a subunit of 3' end mRNA maturation complex in Arabidopsis thaliana
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Summary To obtain transcriptome-wide effects of shot2 mutation, we performed RNA-Seq analysis of comparing hot1-4 shot2 double mutant with hot1-4 (control with a dominant-negative mutation in HSP101) in the absence and presence of a heat treatment (38 °C/3h). Heat treatment causes transcriptional readthrough events in hot1-4 shot2, specifically in highly heat-induced genes, including the toxic hot1-4 gene. In addition, failure of correct transcript processing leads to reduced accumulation of many HSP RNAs and proteins, suppressing heat sensitivity of the hot1-4 mutant, due to reduction of the toxic mutant HSP101 protein.
 
Overall design hot1-4 and hot1-4 shot2 seedlings grown on agar plates until stage 1.02 were treated with or without heat stress at 38 °C for 3h followed by 22 °C for 1h. Three biological replicates each of four sample groups (12 total samples)
 
Contributor(s) Kim M, Vierling E
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Submission date Oct 03, 2021
Last update date Oct 07, 2021
Contact name Minsoo Kim
E-mail(s) mkim3@umass.edu
Phone 4135450469
Organization name University of Massachusetts Amherst
Department BMB
Lab Vierling
Street address 240 Thatcher Rd. N340B
City Amherst
State/province MA
ZIP/Postal code 01003
Country USA
 
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (12)
GSM5608442 hot1-4 RT rep1
GSM5608443 hot1-4 RT rep2
GSM5608444 hot1-4 RT rep3
Relations
BioProject PRJNA768276
SRA SRP339822

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
GSE185225_RAW.tar 1.3 Mb (http)(custom) TAR (of TXT)
GSE185225_all_HTseq_TabDelimited.txt.gz 423.3 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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