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Series GSE131520 Query DataSets for GSE131520
Status Public on Dec 08, 2019
Title RNA-RNA interactomes of Hfq and ProQ reveal overlapping and competing roles for RNA chaperones
Organism Escherichia coli K-12
Experiment type Other
Summary In many bacteria, the base pairing between most small regulatory RNAs (sRNAs) and their targets is facilitated by the Hfq RNA chaperone. However, recent studies have shown FinO-domain proteins also bind sRNAs. To compare the contributions of Hfq and the FinO-domain ProQ protein in Escherichia coli, we carried out RIL-seq, which allows global identification of two RNAs bound to the same protein. We detected hundreds of RNA pairs on ProQ. Intriguingly, 33% of the ProQ-bound RNA pairs are also found associated with Hfq, suggesting overlapping, complementary or competing roles for the two proteins.
 
Overall design Applying RIL-seq to strains carrying chromosomly Hfq-FLAG or ProQ-3XFLAG in the presence or in the absence of the other RNA chaperon.
 
Contributor(s) Melamed S, Adams PP, Zhang A, Zhang H, Storz G
Citation(s) 31761494, 37843988
Submission date May 20, 2019
Last update date Oct 26, 2023
Contact name Ryan Dale
E-mail(s) dalerr@nih.gov
Organization name National Institutes of Health
Department National Institute of Child Health and Human Development
Lab Bioinformatics and Scientific Programming Core
Street address Rm 10D39, 10 Center Drive
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platforms (1)
GPL24570 Illumina HiSeq 2500 (Escherichia coli K-12)
Samples (56)
GSM3785104 Control library of untagged Hfq and ProQ other 1_wt LB 1
GSM3785105 Tagged ProQ other 2_ProQ-FLAG LB 1
GSM3785106 Tagged Hfq other 3_Hfq-FLAG LB 1
Relations
BioProject PRJNA543880
SRA SRP198991

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Supplementary file Size Download File type/resource
GSE131520_RAW.tar 164.4 Mb (http)(custom) TAR (of BED, WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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