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Entropy in Cell Biology and Biophysics: From Gene Expression Regulation to Molecular Motors

A special issue of Entropy (ISSN 1099-4300). This special issue belongs to the section "Entropy and Biology".

Deadline for manuscript submissions: 30 July 2024 | Viewed by 663

Special Issue Editor


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Guest Editor
Department of Drug and Discovery Medicine, Graduate School of Medicine, Kyoto University, Kyoto 606-8507, Japan
Interests: molecular pathology; signal transduction

Special Issue Information

Dear Colleagues,

In recent years, the advancements in informational thermodynamics, stochastic thermodynamics, and non-equilibrium thermodynamics have fostered a comprehensive understanding of informational entropy and thermodynamic entropy. Based on these foundations, the research areas that have been highlighted include intracellular signal transduction, the operation of molecular motors involving information conversion, and cellular movement. Cells, being non-equilibrium and open systems, capture environmental changes as information, convert this information into various forms, transmit it, and ultimately induce gene expression or cellular movement. The key players in this information transmission and conversion are proteins known as signaling molecules. Through a sequence of modification reactions, these modified proteins bind to the DNA within the cell nucleus as 'transcription factors', promoting gene expression, or convert mutual information into mechanical energy to drive molecular motors, potentially initiating cellular movement through chemical reactions. This Special Issue primarily focuses on topics related to cellular signal transmission and molecular motors in the context of information conversion.

The core aim of this Special Issue is to propose a framework that captures the unified mechanism of cellular information transmission and to explore a unified theory for biological research based on information science.

Prof. Dr. Tatsuaki Tsuruyama
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Entropy is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • entropy or information content
  • Shannon entropy
  • Hatano–Sasa entropy
  • information thermodynamics
  • stochastic thermodynamics
  • fluctuation theorem
  • mutual information and Kullback–Leibler divergence
  • signal transduction
  • molecular motor
  • cell movement
  • chemotaxis
  • entropy coding

Published Papers (1 paper)

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Research

13 pages, 1657 KiB  
Article
Harnessing Information Thermodynamics: Conversion of DNA Information into Mechanical Work in RNA Transcription and Nanopore Sequencing
by Tatsuaki Tsuruyama
Entropy 2024, 26(4), 324; https://doi.org/10.3390/e26040324 - 11 Apr 2024
Viewed by 510
Abstract
Recent advancements in information thermodynamics have revealed that information can be directly converted into mechanical work. Specifically, RNA transcription and nanopore sequencing serve as prime examples of this conversion, by reading information from a DNA template. This paper introduces an information thermodynamic model [...] Read more.
Recent advancements in information thermodynamics have revealed that information can be directly converted into mechanical work. Specifically, RNA transcription and nanopore sequencing serve as prime examples of this conversion, by reading information from a DNA template. This paper introduces an information thermodynamic model in which these molecular motors can move along the DNA template by converting the information read from the template DNA into their own motion. This process is a stochastic one, characterized by significant fluctuations in forward movement and is described by the Fokker–Planck equation, based on drift velocity and diffusion coefficients. In the current study, it is hypothesized that by utilizing the sequence information of the template DNA as mutual information, the fluctuations can be reduced, thereby biasing the forward movement on DNA and, consequently, reducing reading errors. Further research into the conversion of biological information by molecular motors could unveil new applications, insights, and important findings regarding the characteristics of information processing in biology. Full article
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