Literature DB >> 33674667

Variability in mRNA translation: a random matrix theory approach.

Michael Margaliot1, Wasim Huleihel1, Tamir Tuller2.   

Abstract

The rate of mRNA translation depends on the initiation, elongation, and termination rates of ribosomes along the mRNA. These rates depend on many "local" factors like the abundance of free ribosomes and tRNA molecules in the vicinity of the mRNA molecule. All these factors are stochastic and their experimental measurements are also noisy. An important question is how protein production in the cell is affected by this considerable variability. We develop a new theoretical framework for addressing this question by modeling the rates as identically and independently distributed random variables and using tools from random matrix theory to analyze the steady-state production rate. The analysis reveals a principle of universality: the average protein production rate depends only on the of the set of possible values that the random variable may attain. This explains how total protein production can be stabilized despite the overwhelming stochasticticity underlying cellular processes.

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Year:  2021        PMID: 33674667      PMCID: PMC7970873          DOI: 10.1038/s41598-021-84738-0

Source DB:  PubMed          Journal:  Sci Rep        ISSN: 2045-2322            Impact factor:   4.379


  71 in total

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Journal:  Cell       Date:  2010-04-16       Impact factor: 41.582

2.  Global analysis of mRNA localization reveals a prominent role in organizing cellular architecture and function.

Authors:  Eric Lécuyer; Hideki Yoshida; Neela Parthasarathy; Christina Alm; Tomas Babak; Tanja Cerovina; Timothy R Hughes; Pavel Tomancak; Henry M Krause
Journal:  Cell       Date:  2007-10-05       Impact factor: 41.582

3.  New computational model for miRNA-mediated repression reveals novel regulatory roles of miRNA bindings inside the coding region.

Authors:  Shaked Bergman; Alon Diament; Tamir Tuller
Journal:  Bioinformatics       Date:  2020-12-15       Impact factor: 6.937

4.  Determinants of translation speed are randomly distributed across transcripts resulting in a universal scaling of protein synthesis times.

Authors:  Ajeet K Sharma; Nabeel Ahmed; Edward P O'Brien
Journal:  Phys Rev E       Date:  2018-02       Impact factor: 2.529

Review 5.  Ribosomopathies: There's strength in numbers.

Authors:  Eric W Mills; Rachel Green
Journal:  Science       Date:  2017-11-03       Impact factor: 47.728

Review 6.  Seeing is believing: visualizing transcriptional dynamics in single cells.

Authors:  Alyshia Newhart; Susan M Janicki
Journal:  J Cell Physiol       Date:  2014-03       Impact factor: 6.384

7.  Widespread non-modular overlapping codes in the coding regions.

Authors:  Shaked Bergman; Tamir Tuller
Journal:  Phys Biol       Date:  2020-04-08       Impact factor: 2.583

Review 8.  Mathematical and Computational Modelling of Ribosomal Movement and Protein Synthesis: an overview.

Authors:  Tobias von der Haar
Journal:  Comput Struct Biotechnol J       Date:  2012-02-20       Impact factor: 7.271

9.  Optimal Translation Along a Circular mRNA.

Authors:  Yoram Zarai; Alexander Ovseevich; Michael Margaliot
Journal:  Sci Rep       Date:  2017-08-25       Impact factor: 4.379

10.  A deterministic model for one-dimensional excluded flow with local interactions.

Authors:  Yoram Zarai; Michael Margaliot; Anatoly B Kolomeisky
Journal:  PLoS One       Date:  2017-08-10       Impact factor: 3.240

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  1 in total

1.  Large-scale mRNA translation and the intricate effects of competition for the finite pool of ribosomes.

Authors:  Aditi Jain; Michael Margaliot; Arvind Kumar Gupta
Journal:  J R Soc Interface       Date:  2022-03-09       Impact factor: 4.118

  1 in total

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