Literature DB >> 24089727

Competition enhances stochasticity in biochemical reactions.

Taylor Firman1, Kingshuk Ghosh.   

Abstract

We study stochastic dynamics of two competing complexation reactions (i) A + B↔AB and (ii) A + C↔AC. Such reactions are common in biology where different reactants compete for common resources--examples range from binding enzyme kinetics to gene expression. On the other hand, stochasticity is inherent in biological systems due to small copy numbers. We investigate the complex interplay between competition and stochasticity, using coupled complexation reactions as the model system. Within the master equation formalism, we compute the exact distribution of the number of complexes to analyze equilibrium fluctuations of several observables. Our study reveals that the presence of competition offered by one reaction (say A + C↔AC) can significantly enhance the fluctuation in the other (A + B↔AB). We provide detailed quantitative estimates of this enhanced fluctuation for different combinations of rate constants and numbers of reactant molecules that are typical in biology. We notice that fluctuations can be significant even when two of the reactant molecules (say B and C) are infinite in number, maintaining a fixed stoichiometry, while the other reactant (A) is finite. This is purely due to the coupling mediated via resource sharing and is in stark contrast to the single reaction scenario, where large numbers of one of the components ensure zero fluctuation. Our detailed analysis further highlights regions where numerical estimates of mass action solutions can differ from the actual averages. These observations indicate that averages can be a poor representation of the system, hence analysis that is purely based on averages such as mass action laws can be potentially misleading in such noisy biological systems. We believe that the exhaustive study presented here will provide qualitative and quantitative insights into the role of noise and its enhancement in the presence of competition that will be relevant in many biological settings.

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Year:  2013        PMID: 24089727     DOI: 10.1063/1.4816527

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  4 in total

1.  Perspective: Reaches of chemical physics in biology.

Authors:  Martin Gruebele; D Thirumalai
Journal:  J Chem Phys       Date:  2013-09-28       Impact factor: 3.488

2.  Stoichiometric versus stochastic interaction in models of liquid-liquid phase separation.

Authors:  Kingshuk Ghosh
Journal:  Biophys J       Date:  2021-12-10       Impact factor: 4.033

3.  Inhibitors Alter the Stochasticity of Regulatory Proteins to Force Cells to Switch to the Other State in the Bistable System.

Authors:  Wun-Sin Jhang; Shih-Chiang Lo; Chen-Chao Yeh; Che-Chi Shu
Journal:  Sci Rep       Date:  2017-06-30       Impact factor: 4.379

4.  Effect of transcription factor resource sharing on gene expression noise.

Authors:  Dipjyoti Das; Supravat Dey; Robert C Brewster; Sandeep Choubey
Journal:  PLoS Comput Biol       Date:  2017-04-17       Impact factor: 4.475

  4 in total

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