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Related Concept Videos

Ribosome Profiling02:24

Ribosome Profiling

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Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
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Ribosomes01:27

Ribosomes

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Ribosomes translate genetic information encoded by messenger RNA (mRNA) into proteins. Both prokaryotic and eukaryotic cells have ribosomes. Cells that synthesize large quantities of protein—such as secretory cells in the human pancreas—can contain millions of ribosomes.
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Ribosomes01:27

Ribosomes

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Ribosomes translate genetic information encoded by messenger RNA (mRNA) into proteins. Both prokaryotic and eukaryotic cells have ribosomes. Cells that synthesize large quantities of protein—such as secretory cells in the human pancreas—can contain millions of ribosomes.
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Systematic Sampling Method01:17

Systematic Sampling Method

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Sampling is a technique to select a portion (or subset) of the larger population and study that portion (the sample) to gain information about the population. Data are the result of sampling from a population. The sampling method ensures that samples are drawn without bias and accurately represent the population. Because measuring the entire population in a study is not practical, researchers use samples to represent the population of interest.
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Ribosomal RNA Synthesis02:53

Ribosomal RNA Synthesis

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Ribosome synthesis is a highly complex and coordinated process involving more than 200 assembly factors. The synthesis and processing of ribosomal components occurs not only in the nucleolus but also in the nucleoplasm and the cytoplasm of eukaryotic cells.
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Related Experiment Video

Updated: Jan 29, 2026

Isolation of Ribosome Bound Nascent Polypeptides in vitro to Identify Translational Pause Sites Along mRNA
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A systematically-revised ribosome profiling method for bacteria reveals pauses at single-codon resolution.

Fuad Mohammad1, Rachel Green1,2, Allen R Buskirk1

  • 1Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, United States.

Elife
|February 7, 2019
PubMed
Summary
This summary is machine-generated.

Ribosome profiling in bacteria is now improved to analyze protein synthesis at the codon level. New methods overcome technical issues, revealing how cell physiology impacts translation regulation.

Keywords:
E. colibacteriabiochemistrychemical biologychromosomesgene expressionpausingribosome profilingserine

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Area of Science:

  • Molecular Biology
  • Microbiology
  • Genetics

Background:

  • Ribosome profiling in eukaryotes offers codon-level insights into protein synthesis.
  • Bacterial ribosome profiling has faced technical challenges and lacks standardized protocols.

Purpose of the Study:

  • To identify and resolve issues in bacterial ribosome profiling sample preparation.
  • To enable high-resolution, codon-level analysis of bacterial protein synthesis in vivo.

Main Methods:

  • Developed novel methods for arresting translation and harvesting bacterial cells.
  • Implemented improvements to remove artifacts and enhance ribosome profiling resolution.

Main Results:

  • Achieved codon-level resolution for analyzing ribosome behavior in bacteria.
  • Observed translational pauses at serine and glycine codons induced by culture filtering.
  • Linked these pauses to reduced tRNA aminoacylation levels.

Conclusions:

  • Optimized bacterial ribosome profiling provides a clearer view of the translational landscape.
  • Demonstrated how cellular physiological changes, like reduced tRNA aminoacylation, regulate protein synthesis.
  • Highlighted the utility of improved ribosome profiling for studying codon-level translation mechanisms and regulation in bacteria.