GSE102069 Unraveling cis-regulatory elements by mapping structural changes in mRNAs

Contributors : Orel Mizrahi ; Alina Shitrit ; Idit Gilbert ; Aharon Nachshon ; Noam Stern-GinossarSeries Type : Expression profiling by high throughput sequencing ; OtherOrganism : Homo sapiensmRNA molecules are generally thought to be messengers of genetic information in the cell. Stretches of RNA that are complementary in sequence have a propensity to pair, forming elements of secondary structure within RNA molecules. Although these structures will exist in every mRNA molecule, the role they play in gene regulation is not well understood. Currently two techniques are available to profile the cell RNA structure, in-vivo, in an unbiased manner. We applied one of those techniques, DMS-seq, for probing the human mRNA structure in primary foreskin fibroblasts (HFFs) along human cytomegalovirus (HCMV) infection. As a proof of concept, using DMS-seq, we managed to predict the already solved human 28S rRNA structure with high accuracy. Using our data, we are able to show for the first time in-vivo, that human coding sequences (CDSs) are less structured relative to UTRs. Additionally, we provide systematic in-vivo evidences for unwinding of the mRNA by the ribosomes during translation. Intriguingly, we also found structural changes in human CDSs around the start and stop codon, and also in 3 ’UTRs. The combination of accurate measurements of translation regulation and mapping changes in mRNA structure along a dynamic process can be used as a platform for deciphering cis-regul...
Source: GEO: Gene Expression Omnibus - Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Other Homo sapiens Source Type: research