Chapter category:

A Model Library of Bacterial Chemotaxis on E‑Cell System

This chapter appears in the following book:

E-Cell System: Basic Concepts
and Applications

Edited by: Satya Nanda Vel Arjunan, Pawan K. Dhar and Masaru Tomita
ISBN: TBA
» Get more information about this book at landesbioscience.com «

Chapter authors:
Yuri Matsuzaki

[+] view image

Bacterial organisms like Escherichia coli have developed mechanisms to detect and direct cell movement toward substrate when starved. Such behavior is known as chemotaxis (15 for recent review). Some nutrition (amino acids, sugar, etc.) can be sensed by the chemotaxis signal transduction system (Fig. 1). When the concentration of attractants increases, a signal is transmitted from the chemoreceptors to flagellar motor which influences the random walk of the bacterium. The fraction of time spent in run gets longer as the signal is transmitted, permitting the cells to be close to the nutrition rich environment for a longer period of time. There are two modes of swimming behavior that are controlled by flagellar motor rotation: counter clockwise rotation, which causes the cell to ‘run’ and clockwise rotation, which makes the cell ‘tumble’ more frequently. In a nonstimulated environment, cells run four times longer than tumbling. Attractants like aspartate (Asp) shorten the tumbling time to increase a smooth run and lead cells to be in a more favorable environment.

Yuri Matsuzaki
Institute for Advanced Biosciences, Keio University

» Download Open Access Chapter

Additional chapters from this book:

Distributed Cell Biology Simulations with the E‑Cell System

Masahiro Sugimoto

Analytical techniques in computational cell biology such as kinetic parameter estimation, Metabolic Control Analysis (MCA) and bifurcation analysis require large numbers of repetitive simulation runs ...

Foundations of E‑Cell Simulation Environment Architecture

Nathan Addy and Koichi Takahashi

The thorough overview of the E‑Cell Simulation Environment in this chapter provides a foundation for understanding the systems biology research that uses the E‑Cell Simulation Environment ...

Electrophysiological Simulation of Developmental Changes in Action Potentials of Cardiomyocytes

Hitomi Itoh

During cardiomyocyte development, early embryonic ventricular cells show spontaneous activity that disappears at a later stage. Dramatic changes in action potential are mediated by developmental chang...

Decoding the Signaling Mechanism of Toll-Like Receptor 4 Pathways in Wild Type and Knockouts

Kumar Selvarajoo

The Myeloid Differentiation Primary‑Response Protein 88 (MyD88)‑dependent and—independent pathways induce proinflammatory cytokines when toll‑like receptor 4 (TLR4) is activated th...

Simulation of Human Erythrocyte Metabolism

Ayako Kinoshita

Since a mature mammalian erthrocyte is enucleated and it is void of mitochondria, gene expression does not take place, while glycolysis is the only mechanism to produce ATP. This simplicity makes its ...

A Model Library of Bacterial Chemotaxis on E‑Cell System

Yuri Matsuzaki

Hsp70-Mediated Protein Refolding in E-Cell

Bin Hu, Matthias P. Mayer and Masaru Tomita

In this work, we used E‑Cell, a software package aiming at large‑scale modeling with full object‑oriented modeling support, to analyze the 70kDa heat shock protein (Hsp70) chaperone ...

Whole Cell Modeling—Fundamental Basis and Applications

Pawan Dhar

An offshoot of classical bioinformatics, whole cell modeling integrates information from metabolic pathways, gene regulation and expression. This new area of in‑silico biology converges discipli...

Chapter category:

A Model Library of Bacterial Chemotaxis on E‑Cell System

Additional chapters from this book:

SIGN IN