The dynamics of supply and demand in mRNA translation

We study the elongation stage of mRNA translation in eukaryotes and find that, in contrast to the assumptions of previous models, both the supply and the demand for tRNA resources are important for determining elongation rates. We find that increasing the initiation rate of translation can lead to t...

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Bibliographic Details
Published in:PLoS computational biology 2011-10, Vol.7 (10), p.e1002203-e1002203
Main Authors: Brackley, Chris A, Romano, M Carmen, Thiel, Marco
Format: Article
Language:English
Subjects:
Amino acids
Biology
Brewer's yeast
Codons
Competition
Computer applications
Elongation
Enzyme kinetics
Genetic aspects
Genetics
Genome, Fungal
Genomes
Messenger RNA
Monte Carlo Method
Monte Carlo simulation
Open reading frames
Physics
Physiological aspects
Polypeptides
Protein Biosynthesis
Proteins
RNA, Messenger - genetics
RNA, Transfer - genetics
Saccharomyces cerevisiae
Saccharomyces cerevisiae - genetics
Transfer RNA
Translation initiation
tRNA
Yeast
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Summary:We study the elongation stage of mRNA translation in eukaryotes and find that, in contrast to the assumptions of previous models, both the supply and the demand for tRNA resources are important for determining elongation rates. We find that increasing the initiation rate of translation can lead to the depletion of some species of aa-tRNA, which in turn can lead to slow codons and queueing. Particularly striking "competition" effects are observed in simulations of multiple species of mRNA which are reliant on the same pool of tRNA resources. These simulations are based on a recent model of elongation which we use to study the translation of mRNA sequences from the Saccharomyces cerevisiae genome. This model includes the dynamics of the use and recharging of amino acid tRNA complexes, and we show via Monte Carlo simulation that this has a dramatic effect on the protein production behaviour of the system.
ISSN:1553-7358
1553-734X
1553-7358
DOI:10.1371/journal.pcbi.1002203