Translation is a tightly controlled mechanism in response to abiotic stress tolerance in plants, partly due to how energetically expensive translation is. Under hostile conditions, plants significantly downregulate growth, choosing to conserve resources until more favourable conditions return. Translation also plays a key role in rapidly producing protective proteins, increasing the likelihood of survival. With […]
What is RNA-seq based differential gene expression’s (DGE) blind spot? RNA-seq is a powerful and widely employed tool to quantify gene expression at the RNA level. However, that there are several limitations when using RNA-seq only derived gene expression counts to predict differential gene expression (DGE) across different treatments or conditions. The primary blind spot […]
Ribosome Profiling: A Window into Translation Dynamics Ribosome profiling provides a snapshot of active translation by sequencing ribosome-protected mRNA fragments1 allowing the identification of which mRNAs are being translated, thereby offering insights into the translational control of gene expression. Ribo-seq data are instrumental in revealing the intricacies of translation initiation, elongation, and termination, as well […]
Not all codons are decoded at the same rate Not all codons are decoded at the same rate; some are translated quickly, while others may cause ribosomes to pause or move slower. These differences in decoding rates can be influenced by factors such as codon sequence, tRNA abundance and mRNA structure. Ribosome profiling (Ribo-seq) maps […]
https://eirnabio.com/wp-content/uploads/2025/08/Question-29.mp4 Introduction Ribosome profiling (Ribo-seq)’s capture of the precise location and density of ribosomes across the entire transcriptome provides a snapshot of actively translated regions. Recent research has leveraged Ribo-seq’s inherent triplet periodicity signal and mRNA positional information to predict the translation of open reading frames (ORFs) alternative to the annotated protein coding ORF (CDS)1,2. […]
