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Ribosome profiling: a Hi-Def monitor for protein synthesis at the genome-wide scale.

Michel AM, Baranov PV - Wiley Interdiscip Rev RNA (2013)

Bottom Line: Ribosome profiling of elongating ribosomes has been used for measuring differential gene expression at the level of translation, the identification of novel protein coding genes and ribosome pausing.It has also provided data for developing quantitative models of translation.Although only a dozen or so ribosome profiling datasets have been published so far, they have already dramatically changed our understanding of translational control and have led to new hypotheses regarding the origin of protein coding genes.

View Article: PubMed Central - PubMed

Affiliation: Biochemistry Department, University College Cork, Ireland.

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Examples of temporal translational control. Panel (a) shows the expression levels of the adjacent SPS1 and SPS2 genes at different stages of meiosis in S. cerevisiae. The mRNA levels are consistent throughout all stages of meiosis. However, the ribosome profiling data for SPS1 shows strong temporal translational regulation while SPS2 does not (Reprinted with permission from Ref 48. Copyright 2012 AAAS). Panel (b) provides a heatmap of the ribosome density of viral genes clustered according to expression levels at 5, 24, and 72 h after the infection of human foreskin fibroblasts with cytomegalovirus (Reprinted with permission from Ref 14. Copyright 2012 AAAS)
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fig05: Examples of temporal translational control. Panel (a) shows the expression levels of the adjacent SPS1 and SPS2 genes at different stages of meiosis in S. cerevisiae. The mRNA levels are consistent throughout all stages of meiosis. However, the ribosome profiling data for SPS1 shows strong temporal translational regulation while SPS2 does not (Reprinted with permission from Ref 48. Copyright 2012 AAAS). Panel (b) provides a heatmap of the ribosome density of viral genes clustered according to expression levels at 5, 24, and 72 h after the infection of human foreskin fibroblasts with cytomegalovirus (Reprinted with permission from Ref 14. Copyright 2012 AAAS)

Mentions: Brar et al. explored temporal changes in gene expression during meiosis in S. cerevisiae.48 Over stage-specific timepoints, ribosome profiling captured many dynamic events that occur during the progression of meiosis that were not detected with previous technologies. They found at least 10-fold variations in expression for 66% of genes. While most of these variations occur due to changes in the abundance of gene transcripts, ribo-seq also revealed pervasive translational regulation. At the global level, translation was decreased during meiosis, especially at its earliest and latest stages. Brar et al. also observed stage-specific regulation in the translation of individual mRNAs matching the timing of their products known function.48Figure 5a provides an example of stage-specific translational regulation observed for the adjacent SPS1 and SPS2 genes. The mRNA levels for both genes showed comparable changes throughout the different stages of meiosis. Yet SPS1, but not SPS2, showed a strong temporal delay in the activation of its translation.


Ribosome profiling: a Hi-Def monitor for protein synthesis at the genome-wide scale.

Michel AM, Baranov PV - Wiley Interdiscip Rev RNA (2013)

Examples of temporal translational control. Panel (a) shows the expression levels of the adjacent SPS1 and SPS2 genes at different stages of meiosis in S. cerevisiae. The mRNA levels are consistent throughout all stages of meiosis. However, the ribosome profiling data for SPS1 shows strong temporal translational regulation while SPS2 does not (Reprinted with permission from Ref 48. Copyright 2012 AAAS). Panel (b) provides a heatmap of the ribosome density of viral genes clustered according to expression levels at 5, 24, and 72 h after the infection of human foreskin fibroblasts with cytomegalovirus (Reprinted with permission from Ref 14. Copyright 2012 AAAS)
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3823065&req=5

fig05: Examples of temporal translational control. Panel (a) shows the expression levels of the adjacent SPS1 and SPS2 genes at different stages of meiosis in S. cerevisiae. The mRNA levels are consistent throughout all stages of meiosis. However, the ribosome profiling data for SPS1 shows strong temporal translational regulation while SPS2 does not (Reprinted with permission from Ref 48. Copyright 2012 AAAS). Panel (b) provides a heatmap of the ribosome density of viral genes clustered according to expression levels at 5, 24, and 72 h after the infection of human foreskin fibroblasts with cytomegalovirus (Reprinted with permission from Ref 14. Copyright 2012 AAAS)
Mentions: Brar et al. explored temporal changes in gene expression during meiosis in S. cerevisiae.48 Over stage-specific timepoints, ribosome profiling captured many dynamic events that occur during the progression of meiosis that were not detected with previous technologies. They found at least 10-fold variations in expression for 66% of genes. While most of these variations occur due to changes in the abundance of gene transcripts, ribo-seq also revealed pervasive translational regulation. At the global level, translation was decreased during meiosis, especially at its earliest and latest stages. Brar et al. also observed stage-specific regulation in the translation of individual mRNAs matching the timing of their products known function.48Figure 5a provides an example of stage-specific translational regulation observed for the adjacent SPS1 and SPS2 genes. The mRNA levels for both genes showed comparable changes throughout the different stages of meiosis. Yet SPS1, but not SPS2, showed a strong temporal delay in the activation of its translation.

Bottom Line: Ribosome profiling of elongating ribosomes has been used for measuring differential gene expression at the level of translation, the identification of novel protein coding genes and ribosome pausing.It has also provided data for developing quantitative models of translation.Although only a dozen or so ribosome profiling datasets have been published so far, they have already dramatically changed our understanding of translational control and have led to new hypotheses regarding the origin of protein coding genes.

View Article: PubMed Central - PubMed

Affiliation: Biochemistry Department, University College Cork, Ireland.

Show MeSH
Related in: MedlinePlus