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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
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
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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