Literature DB >> 21731597

Model for biological communication in a nanofabricated cell-mimic driven by stochastic resonance.

David K Karig1, Piro Siuti, Roy D Dar, Scott T Retterer, Mitchel J Doktycz, Michael L Simpson.   

Abstract

Cells offer natural examples of highly efficient networks of nanomachines. Accordingly, both intracellular and intercellular communication mechanisms in nature are looked to as a source of inspiration and instruction for engineered nanocommunication. Harnessing biological functionality in this manner requires an interdisciplinary approach that integrates systems biology, synthetic biology, and nanofabrication. Here, we present a model system that exemplifies the synergism between these realms of research. We propose a synthetic gene network for operation in a nanofabricated cell mimic array that propagates a biomolecular signal over long distances using the phenomenon of stochastic resonance. Our system consists of a bacterial quorum sensing signal molecule, a bistable genetic switch triggered by this signal, and an array of nanofabricated cell mimic wells that contain the genetic system. An optimal level of noise in the system helps to propagate a time-varying AHL signal over long distances through the array of mimics. This noise level is determined both by the system volume and by the parameters of the genetic network. Our proposed genetically driven stochastic resonance system serves as a testbed for exploring the potential harnessing of gene expression noise to aid in the transmission of a time-varying molecular signal.

Entities:  

Year:  2011        PMID: 21731597      PMCID: PMC3124924          DOI: 10.1016/j.nancom.2011.03.001

Source DB:  PubMed          Journal:  Nano Commun Netw        ISSN: 1878-7789            Impact factor:   2.947


  65 in total

1.  Regulation of noise in the expression of a single gene.

Authors:  Ertugrul M Ozbudak; Mukund Thattai; Iren Kurtser; Alan D Grossman; Alexander van Oudenaarden
Journal:  Nat Genet       Date:  2002-04-22       Impact factor: 38.330

2.  Cell Free Translation in Engineered Picoliter Volume Containers.

Authors:  Piro Siuti; Scott T Retterer; Chang Kyoung Choi; Jason D Fowlkes; Mitchel J Doktycz
Journal:  Annu ORNL Biomed Sci Eng Cent Conf       Date:  2009-06-19

Review 3.  Quorum sensing: cell-to-cell communication in bacteria.

Authors:  Christopher M Waters; Bonnie L Bassler
Journal:  Annu Rev Cell Dev Biol       Date:  2005       Impact factor: 13.827

Review 4.  Noise in biological circuits.

Authors:  Michael L Simpson; Chris D Cox; Michael S Allen; James M McCollum; Roy D Dar; David K Karig; John F Cooke
Journal:  Wiley Interdiscip Rev Nanomed Nanobiotechnol       Date:  2009 Mar-Apr

Review 5.  Enzymes inside lipid vesicles: preparation, reactivity and applications.

Authors:  P Walde; S Ichikawa
Journal:  Biomol Eng       Date:  2001-10-31

Review 6.  Nature, nurture, or chance: stochastic gene expression and its consequences.

Authors:  Arjun Raj; Alexander van Oudenaarden
Journal:  Cell       Date:  2008-10-17       Impact factor: 41.582

7.  Cell-free synthetic biology: a bottom-up approach to discovery by design.

Authors:  Michael L Simpson
Journal:  Mol Syst Biol       Date:  2006-12-12       Impact factor: 11.429

8.  Construction of an in vitro bistable circuit from synthetic transcriptional switches.

Authors:  Jongmin Kim; Kristin S White; Erik Winfree
Journal:  Mol Syst Biol       Date:  2006-12-12       Impact factor: 11.429

9.  Timing cellular decision making under noise via cell-cell communication.

Authors:  Aneta Koseska; Alexey Zaikin; Jürgen Kurths; Jordi García-Ojalvo
Journal:  PLoS One       Date:  2009-03-13       Impact factor: 3.240

10.  A synthetic Escherichia coli predator-prey ecosystem.

Authors:  Frederick K Balagaddé; Hao Song; Jun Ozaki; Cynthia H Collins; Matthew Barnet; Frances H Arnold; Stephen R Quake; Lingchong You
Journal:  Mol Syst Biol       Date:  2008-04-15       Impact factor: 11.429

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  2 in total

1.  Study of detecting mechanism of carbon nanotubes gas sensor based on multi-stable stochastic resonance model.

Authors:  Zhu Jingyi
Journal:  Bioengineered       Date:  2015-07-22       Impact factor: 3.269

2.  Expression optimization and synthetic gene networks in cell-free systems.

Authors:  David K Karig; Sukanya Iyer; Michael L Simpson; Mitchel J Doktycz
Journal:  Nucleic Acids Res       Date:  2011-12-17       Impact factor: 16.971

  2 in total

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