Abstract
Post-transcriptional regulation by RNA binding proteins (RBPs) plays prominent roles in a variety of biological processes. In this study, by analyzing the global regulatory relationship between RBPs and their target mRNAs in yeast, we discovered that most RBP genes are co-regulated with their target genes, but the RBPs tend to dampen expression variation among their target mRNAs. We further examined a well-studied RBP gene, PUF3, and found that the protein decreases the variation of its target mRNAs by differentially affecting their decay. We also constructed a mathematical model to explain the relationship between RBPs and the expression of their target genes. Our results provided new insights into the functional importance of RBPs in coordinating the expression of their target genes.
Highlights
Post-transcriptional regulation by RNA binding proteins (RBPs) plays prominent roles in a variety of biological processes
The same calculation was conducted between the level of RBP expression and CD (CD: Coefficient of Deviation, the standard deviation of all target genes expression divided by their mean) of its mRNA target genes
As CD is the ratio of the standard deviation (SD) of gene expression among targets to their mean expression, to delineate the impact of the mean expression level of the mRNA targets on the negative relationship we observed, we investigated the relationship between the expression of these RBPs and the SD of the expression of their target genes
Summary
Post-transcriptional regulation by RNA binding proteins (RBPs) plays prominent roles in a variety of biological processes. Our results provided new insights into the functional importance of RBPs in coordinating the expression of their target genes. Post-transcriptional regulation is mediated by small RNAs (e.g. microRNAs) or RNA binding proteins (RBPs) which usually bind to elements in the 39 UTR and orchestrate the fate of their targeted mRNAs. The systems properties and evolution of microRNA posttranscriptional regulons have been well studied[9,10,11,12]. We firstly examined the regulatory relationship between RBPs and their target genes in budding yeast using RNA-seq data under different conditions. Our results indicate that most RBPs are co-regulated with their target genes They play an important role in coordinating expression variation of their target genes
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