Dataset Information

Trade-Offs between Speed, Accuracy, and Dissipation in tRNA^Ile Aminoacylation.

ABSTRACT: Living systems maintain a high fidelity in information processing through kinetic proofreading, a mechanism for preferentially removing incorrect substrates at the cost of energy dissipation and slower speed. Proofreading mechanisms must balance their demand for higher speed, fewer errors, and lower dissipation, but it is unclear how rates of individual reaction steps are evolutionarily tuned to balance these needs, especially when multiple proofreading mechanisms are present. Here, using a discrete-state stochastic model, we analyze the optimization strategies in Escherichia coli isoleucyl-tRNA synthetase. Surprisingly, this enzyme adopts an economic proofreading strategy and improves speed and dissipation as long as the error is tolerable. Through global parameter sampling, we reveal a fundamental dissipation-error relation that bounds the enzyme's optimal performance and explains the importance of the post-transfer editing mechanism. The proximity of native system parameters to this bound demonstrates the importance of energy dissipation as an evolutionary force affecting fitness.

SUBMITTER: Yu Q

PROVIDER: S-EPMC7890467 | biostudies-literature | 2020 May

REPOSITORIES: biostudies-literature

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Trade-Offs between Speed, Accuracy, and Dissipation in tRNA<sup>Ile</sup> Aminoacylation.

Yu Qiwei Q Mallory Joel D JD Kolomeisky Anatoly B AB Ling Jiqiang J Igoshin Oleg A OA

The journal of physical chemistry letters 20200506 10

Living systems maintain a high fidelity in information processing through kinetic proofreading, a mechanism for preferentially removing incorrect substrates at the cost of energy dissipation and slower speed. Proofreading mechanisms must balance their demand for higher speed, fewer errors, and lower dissipation, but it is unclear how rates of individual reaction steps are evolutionarily tuned to balance these needs, especially when multiple proofreading mechanisms are present. Here, using a disc ...[more]

PMID: 32354218

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Project description:The ability to dynamically and rapidly adjust task performance based on its outcome is fundamental to adaptive, flexible behavior. Over trials of a task, responses speed up until an error is committed and after the error responses slow down. These dynamic adjustments serve to optimize performance and are well-described by the speed-accuracy trade-off (SATO) function. We hypothesized that SATOs based on outcomes reflect reciprocal changes in the allocation of attention between the internal milieu and the task-at-hand, as indexed by reciprocal changes in activity between the default and dorsal attention brain networks. We tested this hypothesis using functional MRI to examine the pattern of network activation over a series of trials surrounding and including an error. We further hypothesized that these reciprocal changes in network activity are coordinated by the posterior cingulate cortex (PCC) and would rely on the structural integrity of its white matter connections. Using diffusion tensor imaging, we examined whether fractional anisotropy of the posterior cingulum bundle correlated with the magnitude of reciprocal changes in network activation around errors. As expected, reaction time (RT) in trials surrounding errors was consistent with predictions from the SATO function. Activation in the default network was: (i) inversely correlated with RT, (ii) greater on trials before than after an error and (iii) maximal at the error. In contrast, activation in the right intraparietal sulcus of the dorsal attention network was (i) positively correlated with RT and showed the opposite pattern: (ii) less activation before than after an error and (iii) the least activation on the error. Greater integrity of the posterior cingulum bundle was associated with greater reciprocity in network activation around errors. These findings suggest that dynamic changes in attention to the internal versus external milieu in response to errors underlie SATOs in RT and are mediated by the PCC.

Dataset Information

Trade-Offs between Speed, Accuracy, and Dissipation in tRNA^Ile Aminoacylation.

Publications

Trade-Offs between Speed, Accuracy, and Dissipation in tRNA<sup>Ile</sup> Aminoacylation.

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Dataset Information

Trade-Offs between Speed, Accuracy, and Dissipation in tRNAIle Aminoacylation.

Publications

Trade-Offs between Speed, Accuracy, and Dissipation in tRNA<sup>Ile</sup> Aminoacylation.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets

Trade-Offs between Speed, Accuracy, and Dissipation in tRNA^Ile Aminoacylation.