Literature DB >> 23451887

Quantitative modeling of bacterial chemotaxis: signal amplification and accurate adaptation.

Yuhai Tu1.   

Abstract

We review the recent developments in understanding the bacterial chemotaxis signaling pathway by using quantitative modeling methods. The models developed are based on structural information of the signaling complex and the dynamics of the underlying biochemical network. We focus on two important functions of the bacterial chemotaxis signaling pathway: signal amplification and adaptation. We describe in detail the structure and the dynamics of the mathematical models and how they compare with existing experiments, emphasizing the predictability of the models. Finally, we outline future directions for developing the modeling approach to better understand the bacterial chemosensory system.

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Year:  2013        PMID: 23451887      PMCID: PMC3737589          DOI: 10.1146/annurev-biophys-083012-130358

Source DB:  PubMed          Journal:  Annu Rev Biophys        ISSN: 1936-122X            Impact factor:   12.981


  55 in total

1.  Robust perfect adaptation in bacterial chemotaxis through integral feedback control.

Authors:  T M Yi; Y Huang; M I Simon; J Doyle
Journal:  Proc Natl Acad Sci U S A       Date:  2000-04-25       Impact factor: 11.205

2.  Receptor sensitivity in bacterial chemotaxis.

Authors:  Victor Sourjik; Howard C Berg
Journal:  Proc Natl Acad Sci U S A       Date:  2001-12-11       Impact factor: 11.205

3.  Perfect and near-perfect adaptation in a model of bacterial chemotaxis.

Authors:  Bernardo A Mello; Yuhai Tu
Journal:  Biophys J       Date:  2003-05       Impact factor: 4.033

4.  Effects of receptor interaction in bacterial chemotaxis.

Authors:  Bernardo A Mello; Leah Shaw; Yuhai Tu
Journal:  Biophys J       Date:  2004-09       Impact factor: 4.033

5.  An allosteric model for transmembrane signaling in bacterial chemotaxis.

Authors:  Christopher V Rao; Michael Frenklach; Adam P Arkin
Journal:  J Mol Biol       Date:  2004-10-15       Impact factor: 5.469

6.  Chemotaxis in Escherichia coli analysed by three-dimensional tracking.

Authors:  H C Berg; D A Brown
Journal:  Nature       Date:  1972-10-27       Impact factor: 49.962

7.  Collaborative signaling by mixed chemoreceptor teams in Escherichia coli.

Authors:  Peter Ames; Claudia A Studdert; Rebecca H Reiser; John S Parkinson
Journal:  Proc Natl Acad Sci U S A       Date:  2002-04-30       Impact factor: 11.205

8.  Logarithmic sensing in Escherichia coli bacterial chemotaxis.

Authors:  Yevgeniy V Kalinin; Lili Jiang; Yuhai Tu; Mingming Wu
Journal:  Biophys J       Date:  2009-03-18       Impact factor: 4.033

9.  Cellular stoichiometry of the components of the chemotaxis signaling complex.

Authors:  Mingshan Li; Gerald L Hazelbauer
Journal:  J Bacteriol       Date:  2004-06       Impact factor: 3.490

10.  Quantitative modeling of sensitivity in bacterial chemotaxis: the role of coupling among different chemoreceptor species.

Authors:  Bernardo A Mello; Yuhai Tu
Journal:  Proc Natl Acad Sci U S A       Date:  2003-06-25       Impact factor: 12.779

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  64 in total

Review 1.  Live from under the lens: exploring microbial motility with dynamic imaging and microfluidics.

Authors:  Kwangmin Son; Douglas R Brumley; Roman Stocker
Journal:  Nat Rev Microbiol       Date:  2015-12       Impact factor: 60.633

2.  Distinct signaling of Drosophila chemoreceptors in olfactory sensory neurons.

Authors:  Li-Hui Cao; Bi-Yang Jing; Dong Yang; Xiankun Zeng; Ying Shen; Yuhai Tu; Dong-Gen Luo
Journal:  Proc Natl Acad Sci U S A       Date:  2016-02-01       Impact factor: 11.205

Review 3.  Shelter in a Swarm.

Authors:  Rasika M Harshey; Jonathan D Partridge
Journal:  J Mol Biol       Date:  2015-08-12       Impact factor: 5.469

Review 4.  Information processing in bacteria: memory, computation, and statistical physics: a key issues review.

Authors:  Ganhui Lan; Yuhai Tu
Journal:  Rep Prog Phys       Date:  2016-04-08

Review 5.  New Twists and Turns in Bacterial Locomotion and Signal Transduction.

Authors:  Kylie J Watts; Ady Vaknin; Clay Fuqua; Barbara I Kazmierczak
Journal:  J Bacteriol       Date:  2019-09-20       Impact factor: 3.490

6.  Escape band in Escherichia coli chemotaxis in opposing attractant and nutrient gradients.

Authors:  Xuanqi Zhang; Guangwei Si; Yiming Dong; Kaiyue Chen; Qi Ouyang; Chunxiong Luo; Yuhai Tu
Journal:  Proc Natl Acad Sci U S A       Date:  2019-01-23       Impact factor: 11.205

7.  Heterotrimeric G-protein shuttling via Gip1 extends the dynamic range of eukaryotic chemotaxis.

Authors:  Yoichiro Kamimura; Yukihiro Miyanaga; Masahiro Ueda
Journal:  Proc Natl Acad Sci U S A       Date:  2016-04-04       Impact factor: 11.205

8.  Moment-flux models for bacterial chemotaxis in large signal gradients.

Authors:  Chuan Xue; Xige Yang
Journal:  J Math Biol       Date:  2016-02-27       Impact factor: 2.259

9.  The source of high signal cooperativity in bacterial chemosensory arrays.

Authors:  Germán E Piñas; Vered Frank; Ady Vaknin; John S Parkinson
Journal:  Proc Natl Acad Sci U S A       Date:  2016-03-07       Impact factor: 11.205

10.  Macroscopic equations for bacterial chemotaxis: integration of detailed biochemistry of cell signaling.

Authors:  Chuan Xue
Journal:  J Math Biol       Date:  2013-12-24       Impact factor: 2.259

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