Stochastic theory of protein synthesis and polysome: ribosome profile on a single mRNA transcript
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Abstract: The process of polymerizing a protein by a ribosome, using a messenger RNA (mRNA) as the corresponding template, is called {it translation}. Ribosome may be regarded as a molecular motor for which the mRNA template serves also as the track. Often several ribosomes may translate the same (mRNA) simultaneously. The ribosomes bound simultaneously to a single mRNA transcript are the members of a polyribosome (or, simply, {it polysome}). Experimentally measured {it polysome profile} gives the distribution of polysome {it sizes}. Recently a breakthrough in determining the instantaneous {it positions} of the ribosomes on a given mRNA track has been achieved and the technique is called {it ribosome profiling} cite{ingolia10,guo10}. Motivated by the success of these techniques, we have studied the spatio-temporal organization of ribosomes by extending a theoretical model that we have reported elsewhere cite{sharma11}. This extended version of our model incorporates not only (i) mechano-chemical cycle of individual ribomes, and (ii) their steric interactions, but also (iii) the effects of (a) kinetic proofreading, (b) translational infidelity, (c) ribosome recycling, and (d) sequence inhomogeneities. The theoretical framework developed here will serve in guiding further experiments and in analyzing the data to gain deep insight into various kinetic processes involved in translation.
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Cites work
- scientific article; zbMATH DE number 2061732 (Why is no real title available?)
- A model of protein translation including codon bias, nonsense errors, and ribosome recycling
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Cited in
(7)- Fluctuations in interacting particle systems with memory
- Exclusion model of mRNA translation with collision-induced ribosome drop-off
- On the stationary frequency of programmed ribosomal \(-1\) frameshift
- Dynamics of tRNA occupancy and dissociation during translation by the ribosome
- A generalized Michaelis-Menten equation in protein synthesis: effects of mis-charged cognate tRNA and mis-reading of codon
- Generic nonequilibrium steady states in an exclusion process on an inhomogeneous ring
- Ribosome dwell times and the protein copy number distribution
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