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Series GSE108477 Query DataSets for GSE108477
Status Public on Aug 28, 2018
Title A nuclear export block triggers the decay of newly synthesized polyadenylated RNA
Organism Saccharomyces cerevisiae
Experiment type Expression profiling by high throughput sequencing
Summary Genomes are promiscuously transcribed, necessitating mechanisms that facilitate the sorting of RNA for function or destruction. The polyA (pA) tail is one such distinguishing feature, which in the S. cerevisiae nucleus is bound by the Nab2p protein, yielding transcript protection. As Nab2p also contacts the main nuclear export factor Mex67p, we asked whether transport kinetics contributes to RNA sorting. Indeed, 3’end sequencing of newly transcribed pA+ RNAs demonstrates that nuclear depletion of Mex67p elicits their instant and global decay. A similar phenotype is evident upon inactivation of other export factors and proportional to the amount of nuclear pA+ RNA. Since RNA production is partially rescued by Nab2p over-expression, we propose that an export-block out-titrates Nab2p onto nuclear retained pA+ RNA, reducing the pool of Nab2p free to protect new transcripts. More generally, we suggest that nuclear RNA decay, negotiated by Nab2p availability, aids in balancing cellular transcript supply with demand.
Overall design pA+ RNA 3' end sequencing of total and 10min 4-thiouracil (4tU) labelled RNA from S. cerevisiae cells upon nuclear depletion of Mex67p or Nab2p using the anchor-away system for 15 minutes and undepleted control cells. RNA samples were collected in triplicate for each condition. Single replicates for negative controls not labeled with 4tU were processed in parallel.
Contributor(s) Tudek A, Schmid M, Makaras M, Barrass JD, Beggs JD, Jensen TH
Citation(s) 30157437, 34400637
Submission date Dec 22, 2017
Last update date Sep 08, 2021
Contact name Manfred Schmid
Organization name Aarhus University
Department Molecular Biology and Genetics
Lab Torben Heick Jensen
Street address CF Møllers Alle bldg 1130
City Aarhus C
ZIP/Postal code 8000
Country Denmark
Platforms (1)
GPL17342 Illumina HiSeq 2500 (Saccharomyces cerevisiae)
Samples (26)
GSM2901301 Nab_in_0_1
GSM2901302 Nab_in_15_1
GSM2901303 Nab_in_0_2
BioProject PRJNA427344
SRA SRP127468

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Supplementary file Size Download File type/resource
GSE108477_RAW.tar 48.3 Mb (http)(custom) TAR (of BEDGRAPH)
GSE108477_genomicAmask.bed.gz 1.3 Mb (ftp)(http) BED
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Raw data are available in SRA
Processed data provided as supplementary file

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