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Charting the dynamics of translation.

Chu, Dominique, Thompson, James, von der Haar, Tobias (2014) Charting the dynamics of translation. Bio Systems, 119 (1). pp. 1-9. ISSN 1872-8324. (doi:10.1016/j.biosystems.2014.02.005)

Abstract

Codon usage bias (CUB) is the well-known phenomenon that the frequency of synonymous codons is unequal. This is presumably the result of adaptive pressures favouring some codons over others. The underlying reason for this pressure is unknown, although a large number of possible driver mechanisms have been proposed. According to one hypothesis, the decoding time could be such a driver. A tacit assumption of this hypothesis is that faster codons lead to a higher translation rate which in turn is more resource efficient. While it is generally assumed that there is such a link, there are no rigorous studies to establish under which conditions the link between translation speed and rate actually exists. Using a computational simulation model and explicitly calculated codon decoding times, this contribution maps the entire range of dynamical regimes of translation. These simulations make it possible to understand precisely under which conditions translation speed and rate are linked.

Item Type: Article
DOI/Identification number: 10.1016/j.biosystems.2014.02.005
Uncontrolled keywords: Codon usage bias; Modelling; Translation
Subjects: Q Science > QH Natural history > QH324.2 Computational biology
Divisions: Faculties > Sciences > School of Computing
Faculties > Sciences > School of Computing > Computational Intelligence Group
Depositing User: Dominique Chu
Date Deposited: 24 Jun 2014 09:36 UTC
Last Modified: 01 Aug 2019 10:37 UTC
Resource URI: https://kar.kent.ac.uk/id/eprint/41513 (The current URI for this page, for reference purposes)
von der Haar, Tobias: https://orcid.org/0000-0002-6031-9254
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