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Series GSE141288 Query DataSets for GSE141288
Status Public on Sep 14, 2020
Title Pervasive promoter-proximal regulation in archaea: ChIP-exo hydrogen peroxide-treated cells
Organism Saccharolobus solfataricus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Recruitment of RNA polymerase and initiation factors to the promoter is the only known mechanisms for transcription activation and repression in archaea. Whether any of the subsequent steps towards productive transcription elongation is involved in regulation is not known. We characterised how the basal transcription machinery is distributed along genes in the archaeon Sulfolobus solfataricus. We discovered a distinct early elongation phase where RNA polymerases sequentially recruit the elongation factors Spt4/5 and Elf1 to form the transcription elongation complex (TEC) before the TEC escapes into productive transcription. TEC escape is rate-limiting for transcription output during exponential growth. Oxidative stress causes changes in TEC escape that correlate with changes in the transcriptome. Our results thus establish that TEC escape contributes to the basal promoter strength and facilitates transcription regulation. Impaired TEC escape coincides with the accumulation of initiation factors at the promoter and recruitment of termination factor aCPSF1 to the early TEC. This suggests two possible mechanisms for how TEC escape limits transcription, physically blocking upstream RNA polymerases during transcription initiation and premature termination of early TECs.
Overall design ChIP-exo with polyclonal antibodies
Contributor(s) Werner F, Blombach F
Citation(s) 38388540
Submission date Dec 02, 2019
Last update date Mar 07, 2024
Contact name Finn Werner
Organization name University College London
Department Institute of Structural and Molecular Biology
Street address Gower Street
City London
ZIP/Postal code WC1E 6BT
Country United Kingdom
Platforms (1)
GPL27815 Illumina HiSeq 2500 (Saccharolobus solfataricus)
Samples (6)
GSM4200391 Rpo47.H2O2.chip-exo.r1
GSM4200392 Rpo47.H2O2.chip-exo.r2
GSM4200393 Rpo47.H2O2.chip-exo.r3
This SubSeries is part of SuperSeries:
GSE141290 Pervasive promoter-proximal regulation in archaea
BioProject PRJNA593010
SRA SRP234435

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
GSE141288_RAW.tar 67.5 Mb (http)(custom) TAR (of BW) 9.4 Mb (ftp)(http) BW 9.5 Mb (ftp)(http) BW 7.7 Mb (ftp)(http) BW 7.8 Mb (ftp)(http) BW
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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