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Series GSE34743 Query DataSets for GSE34743
Status Public on Mar 15, 2012
Title Ribosome profiling of early zebrafish embryos -- miRNA-mediated regulation during embryogenesis causes translational repression before mRNA decay
Organism Danio rerio
Experiment type Expression profiling by high throughput sequencing
Summary MicroRNAs regulate gene expression through deadenylation, repression and mRNA decay. However, the contribution of each mechanism in non-steady-state situations remains unclear. We monitored the impact of miR-430 on ribosome occupancy of endogenous mRNAs in wild type and dicer mutants lacking mature miR-430. Our results indicate that miR-430 reduces the number of ribosomes on target mRNAs before causing mRNA decay. Translational repression occurs before complete deadenylation, and disrupting deadenylation using an internal poly(A) tail did not block target repression. Finally, we observe that ribosome density along the length of the target mRNA remains constant, suggesting that translational repression occurs by reducing the initiation rate rather than reducing elongation or causing ribosomal drop-off. In summary, our results show that miR-430 regulates translation initiation before inducing mRNA decay.
 
Overall design Time course parallel ribosome profiling and input mRNA quantification in wildtype and MZdicer mutant embryos
 
Contributor(s) Bazzini AA, Lee MT, Giraldez AJ
Citation(s) 22422859
Submission date Dec 27, 2011
Last update date May 15, 2019
Contact name Antonio J. Giraldez
E-mail(s) antonio.giraldez@yale.edu
Phone 203 785 5423
Organization name Yale University
Department Genetics
Lab Giraldez Lab
Street address 333 Cedar Street
City New Haven
State/province CT
ZIP/Postal code 06510
Country USA
 
Platforms (1)
GPL9319 Illumina Genome Analyzer II (Danio rerio)
Samples (22)
GSM854422 Input mRNA-Seq MZdicer 2hpf
GSM854423 Input mRNA-Seq MZdicer 4hpf
GSM854424 Input mRNA-Seq MZdicer 4hpf-2
Relations
SRA SRP010040
BioProject PRJNA150397

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Supplementary file Size Download File type/resource
GSE34743_RAW.tar 136.1 Mb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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