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Feedback Control Architecture and the Bacterial Chemotaxis Network
2011
PLoS Computational Biology
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This response is regulated by the chemotaxis signalling pathway, which has an important feature: it uses feedback to 'reset' (adapt) the bacterial sensing ability, which allows the bacteria to sense a ...
Moreover, it has a 'cascade control' feedback architecture which is used extensively in engineering to improve system performance, including robustness. ...
The chemotaxis signalling pathway in the bacterium Escherichia coli is a simple network with one feedback loop [3] which has been extensively studied and used as a paradigm for the mechanism of chemotaxis ...
doi:10.1371/journal.pcbi.1001130
pmid:21573199
pmcid:PMC3088647
fatcat:bipekcocrnguvglqdd4knpia5q
Adaptive molecular networks controlling chemotactic migration: dynamic inputs and selection of the network architecture
2013
Philosophical Transactions of the Royal Society of London. Biological Sciences
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The authors thank Adriel Bergmann for valuable discussions. Funding statement. The work was funded by NIH grant nos. GM072024 and GM084332. ...
It is of interest, and as suggested below, of possible importance, that the current biochemically informed models of bacterial chemotaxis postulate a type of negative feedback that carries information ...
However, when applied to the high osmolarity response pathway in yeast or in bacterial chemotaxis, the lack of adaptation to ramp stimulation strongly supported NFB architecture [24] . ...
doi:10.1098/rstb.2013.0117
pmid:24062588
pmcid:PMC3785968
fatcat:aaogpbzrxvgvxdjh3idk6zq32m
Feedback control architecture of the R. sphaeroides chemotaxis network
2011
IEEE Conference on Decision and Control and European Control Conference
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From a control theoretic perspective, we show that, compared to the other models posed, this model exhibits better and more robust chemotactic performance. ...
This decision mechanism parallels a feedback architecture that has been used extensively to improve performance in engineered systems. ...
One such pathway is bacterial chemotaxis, which controls bacterial motion in response to environmental stimuli, towards favorable concentrations of chemoeffectors. ...
doi:10.1109/cdc.2011.6161020
dblp:conf/cdc/HamadehARMAIP11
fatcat:bbmxoccskvcbjabprivxwckidy
How to Understand and Outwit Adaptation
2014
Developmental Cell
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ACKNOWLEDGMENTS We would like to thank the members of the Weiner laboratory for helpful discussion. ...
Inspired by bacterial chemotaxis, we take a look at the less understood signaling network of eukaryotic chemotaxis and suggest that adaptation, as in bacteria, might happen at several places in the signaling ...
inputs can help to distinguish the underlying network architecture. ...
doi:10.1016/j.devcel.2014.03.009
pmid:24697896
pmcid:PMC4012857
fatcat:k3dtrnkpkfhajhke6g2dogk7hy
Molecular Information Processing: Lessons from Bacterial Chemotaxis
2002
Journal of Biological Chemistry
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The overall layout of the information processing network that controls E. coli chemotaxis is displayed in Fig. ...
Genetic investigations in many bacterial species have identified the elements from which logic circuits controlling chemotaxis are constructed. ...
Acknowledgments-We thank Dennis Bray, Sandy Parkinson, and Ruth Silversmith for useful discussions. ...
doi:10.1074/jbc.r100066200
pmid:11779877
fatcat:fb3qjitijzbhzoawhtdta6ibmy
Internal Feedback in Biological Control: Architectures and Examples
[article]
2021
arXiv
pre-print
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Feedback is ubiquitous in both biological and engineered control systems. ...
In biology, in addition to typical feedback between plant and controller, we observe feedback pathways within control systems, which we call internal feedback pathways (IFPs), that are often very complex ...
Bacterial Chemotaxis Bacterial chemotaxis, a behavior in which bacteria swim up nutrient gradients, is a canonical case study in robust biomolecular signal transduction and control (typically studied in ...
arXiv:2110.05029v3
fatcat:lr4rhfe5frhdderadnrepkhgoi
Adaptation in Living Systems
2018
Annual Review of Condensed Matter Physics
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We focus on understanding the basic biochemical interaction networks in living matter that are responsible for adaptation dynamics. ...
We take the minimalist (or the physicist) approach and study the simplest systems that exhibit generic adaptive behaviors. ...
We apologize to authors in the field whose work are not cited due to space limitations.
LITERATURE CITED ...
doi:10.1146/annurev-conmatphys-033117-054046
pmid:30057689
pmcid:PMC6060625
fatcat:wo43rx27fbaeda6hxzzjfqj45y
Hydrogen Exchange Reveals Differences between Bacterial Chemoreceptor Signaling States
2015
Biophysical Journal
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Multidomain scaffold proteins serve as hubs in the signal transduction network. By physically colocalizing sequential steps in a transduction pathway, scaffolds catalyze and direct incoming signals. ...
Here we will review these unique surfaces built on cross-b structures of amyloid, and extend that pattern to mixing of positively-and negatively-charged surfaces to give even higher order architectures ...
Platform: Member Organized Session: Protein Nanoassemblies and Networks in Bacterial Chemotaxis and other Two-component Signaling Systems 201-Plat Insights from Phosphorylation Profiling of an Autoregulated ...
doi:10.1016/j.bpj.2014.11.255
fatcat:y5nfjvdy6bdqfgc4jruk3vxsfm
Relationship between cellular response and behavioral variability in bacterial chemotaxis
2008
Proceedings of the National Academy of Sciences of the United States of America
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Bacterial chemotaxis in Escherichia coli is a canonical system for the study of signal transduction. ...
Finally, Large-scale simulations of digital bacteria suggest that the chemotaxis network is tuned to simultaneously optimize the random spread of cells in absence of nutrients and the cellular response ...
Bacterial chemotaxis is a system that controls the locomotion of cells and has arisen as a model system for signal transduction. ...
doi:10.1073/pnas.0705463105
pmid:18299569
pmcid:PMC2265172
fatcat:udoexw4gsnfhjnrohx6zg53564
Control Motifs for Intracellular Regulatory Networks
2001
Annual Review of Biomedical Engineering
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These motifs, recurring elements of control, may help to deduce the structure and function of partially known networks and form the basis for fulfilling the goals described above. ...
A number of approaches to identifying and analyzing control motifs in intracellular networks are reviewed. ...
Rather, the network is characterized by both the stoichiometry and the regulatory architecture. ...
doi:10.1146/annurev.bioeng.3.1.391
pmid:11447069
fatcat:day7ilkuwrcznpapvragyjzgdu
Robustness of Cellular Functions
2004
Cell
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Apparently, mathematical models in biology as well as "network cartoons" are 1 Max Planck Institute for Dynamics of Complex Technical Systems idealizations and not perfect representations of reality. ...
Once biological knowledge is formalized, the rules of CH-8093 Zü rich Switzerland mathematics take over; this may often provide a fresh insight into biology (Endy and Brent, 2001; May, 2004). ...
Hence, chemotaxis is an excellent example for nested feedback as a means to achieve robustness, and it underlines individual roles and significances that Bacterial Chemotaxis different instances of feedback ...
doi:10.1016/j.cell.2004.09.008
pmid:15369668
fatcat:ocrpvw32azcszgcf2224h6x26q
A novel IMC controller based on bacterial foraging optimization algorithm applied to a high speed range PMSM drive
2012
Applied intelligence (Boston)
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Neural network controller and estimator are respectively added to replace the conventional speed regulator and the speed encoder in the global drive scheme. ...
Therefore, a method based on the bacterial foraging optimization (BFO) algorithm is performed to optimize and adjust the IMC low pass filter parameters. ...
and the source are credited. ...
doi:10.1007/s10489-012-0361-0
fatcat:2roid6wtmvhzdgf32bbk3nrpzm
Multi-bit Boolean model for chemotactic drift of Escherichia coli
2020
IET Systems Biology
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The chemotaxis network of the bacterium Escherichia coli (E. coli) is one of the most investigated biological systems. ...
Dynamic biological systems can be modelled to an equivalent modular structure using Boolean networks (BNs) due to their simple construction and relative ease of integration. ...
Symbols → and ⊢ represent the activation and inhibition of a process, respectively Fig. 2 Control block diagram of the chemotaxis network. ...
doi:10.1049/iet-syb.2020.0060
pmid:33399098
pmcid:PMC8687284
fatcat:on3arsomfrci7kzdc3oqia6eae
HOMEOSTATIC CONTROL OF NEURAL ACTIVITY: From Phenomenology to Molecular Design
2006
Annual Review of Neuroscience
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www.annualreviews.org • Principles of Neural Homeostasis
INTEGRATIVE FEEDBACK CONTROL AND PRECISION IN BACTERIAL CHEMOTAXIS Feedback control systems that achieve perfect homeostatic compensation are ...
The question that remains is whether there is evidence of integral feedback control in biological systems ← −−−−−−−−−−−−−−−−−−−−−−−−−−−−−−−− − Figure 3 Integrative feedback and bacterial chemotaxis. ...
Ranum and Thomas A. ...
doi:10.1146/annurev.neuro.28.061604.135751
pmid:16776588
fatcat:42jxk3k7ffd6vfotvleg6asi6m
Simulating the evolution of signal transduction pathways
2006
Journal of Theoretical Biology
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Furthermore, we find that the dynamics and topology of such networks show many similarities to the natural chemotaxis pathway, that the response magnitude can increase with increasing network size and ...
We use a generic model of a network of proteins that can activate or deactivate each other to explore the emergence and evolution of signal transduction networks and to gain a basic understanding of their ...
Neubig, Dennis Bray, Matthew Levin, Karen Lipkow and two anonymous reviewers for very useful comments on the manuscript. ...
doi:10.1016/j.jtbi.2005.11.024
pmid:16403533
fatcat:dj4jcx4uivcdlh57nde453hxam
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