216421a Seminar

WiSe 18/19: Ribosome Profiling / Methods to Monitor Translation

Marina Chekulaeva

Additional information / Pre-requisites

Types of Examination: Presentation, discussion, test

Comments

Translational control is a crucial mechanism of gene regulation. Compared to transcriptional regulation, translational control of existing mRNAs allows for more rapid changes in cellular concentrations of the encoded proteins, due to relatively long, more than 2h, mRNA half-lives. In cells lacking active transcription such as oocytes and reticulocytes, translational control is often the only mechanism to regulate the synthesis of proteins. In highly polarized cells, such as neurons, oocytes or migrating cells, translational regulation is providing for local translation – when mRNA is expressed preferentially at specific parts of the cell, generating local pools of proteins.
Within this workshop, we will review the mechanisms of eukaryotic translation and translational control and focus on current methods that can be used to monitor and measure translation: RNA sequencing- and mass spectrometry-based (TRAP/Ribo-tag, ribosome profiling, proximity-specific ribosome profiling, PUNch-P, pulsed SILAC, BONCAT/QuaNCAT) and imaging-based (SUnSET/ribopuromycylation, puro-PLA/FUNCAT-PLA, TRICK, Nascent peptide imaging).
Content of the seminar

  • Introduction into mechanisms of translation and translational control
  • Methods to monitor and measure translation
    • RNA-seq-based methods (TRAP/Ribo-tag, ribosome profiling, proximity-specific ribosome profiling)
    • mass-spectrometry-based methods (PUNch-P, pulsed SILAC, BONCAT/QuaNCAT)
    • Imaging-based methods (SUnSET/ribopuromycylation, puro-PLA/FUNCAT-PLA, TRICK, Nascent peptide imaging)


Within this workshop, we will review the mechanisms of eukaryotic translation and translational control and focus on current methods that can be used to monitor and measure translation: RNA sequencing- and mass spectrometry-based (TRAP/Ribo-tag, ribosome profiling, proximity-specific ribosome profiling, PUNch-P, pulsed SILAC, BONCAT/QuaNCAT) and imaging-based (SUnSET/ribopuromycylation, puro-PLA/FUNCAT-PLA, TRICK, Nascent peptide imaging).

Dr. Marina Chekulaeva: marina.chekulaeva@mdc-berlin.de