Literature DB >> 26955203

Spatiotemporal dynamics of distributed synthetic genetic circuits.

Oleg Kanakov1, Tetyana Laptyeva1, Lev Tsimring2, Mikhail Ivanchenko1.   

Abstract

We propose and study models of two distributed synthetic gene circuits, toggle-switch and oscillator, each split between two cell strains and coupled via quorum-sensing signals. The distributed toggle switch relies on mutual repression of the two strains, and oscillator is comprised of two strains, one of which acts as an activator for another that in turn acts as a repressor. Distributed toggle switch can exhibit mobile fronts, switching the system from the weaker to the stronger spatially homogeneous state. The circuit can also act as a biosensor, with the switching front dynamics determined by the properties of an external signal. Distributed oscillator system displays another biosensor functionality: oscillations emerge once a small amount of one cell strain appears amid the other, present in abundance. Distribution of synthetic gene circuits among multiple strains allows one to reduce crosstalk among different parts of the overall system and also decrease the energetic burden of the synthetic circuit per cell, which may allow for enhanced functionality and viability of engineered cells.

Entities:  

Keywords:  biosensing; reaction-diffusion systems; synthetic gene networks

Year:  2016        PMID: 26955203      PMCID: PMC4778264          DOI: 10.1016/j.physd.2015.10.016

Source DB:  PubMed          Journal:  Physica D        ISSN: 0167-2789            Impact factor:   2.300


  36 in total

1.  Construction of a genetic toggle switch in Escherichia coli.

Authors:  T S Gardner; C R Cantor; J J Collins
Journal:  Nature       Date:  2000-01-20       Impact factor: 49.962

2.  Distributed biological computation with multicellular engineered networks.

Authors:  Sergi Regot; Javier Macia; Núria Conde; Kentaro Furukawa; Jimmy Kjellén; Tom Peeters; Stefan Hohmann; Eulàlia de Nadal; Francesc Posas; Ricard Solé
Journal:  Nature       Date:  2010-12-08       Impact factor: 49.962

Review 3.  Modeling synthetic gene oscillators.

Authors:  Erin L O'Brien; Elizabeth Van Itallie; Matthew R Bennett
Journal:  Math Biosci       Date:  2012-01-18       Impact factor: 2.144

4.  A synthetic gene-metabolic oscillator.

Authors:  Eileen Fung; Wilson W Wong; Jason K Suen; Thomas Bulter; Sun-gu Lee; James C Liao
Journal:  Nature       Date:  2005-05-05       Impact factor: 49.962

5.  Phototoxic effects of fluorescent protein KillerRed on tumor cells in mice.

Authors:  Marina V Shirmanova; Ekaterina O Serebrovskaya; Konstantin A Lukyanov; Ludmila B Snopova; Marina A Sirotkina; Natalia N Prodanetz; Marina L Bugrova; Ekaterina A Minakova; Ilya V Turchin; Vladislav A Kamensky; Sergey A Lukyanov; Elena V Zagaynova
Journal:  J Biophotonics       Date:  2012-06-13       Impact factor: 3.207

6.  An environment-sensitive synthetic microbial ecosystem.

Authors:  Bo Hu; Jin Du; Rui-yang Zou; Ying-jin Yuan
Journal:  PLoS One       Date:  2010-05-12       Impact factor: 3.240

7.  Delay-induced degrade-and-fire oscillations in small genetic circuits.

Authors:  William Mather; Matthew R Bennett; Jeff Hasty; Lev S Tsimring
Journal:  Phys Rev Lett       Date:  2009-02-13       Impact factor: 9.161

8.  Synthetic in vitro transcriptional oscillators.

Authors:  Jongmin Kim; Erik Winfree
Journal:  Mol Syst Biol       Date:  2011-02-01       Impact factor: 11.429

9.  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

10.  A fast, robust and tunable synthetic gene oscillator.

Authors:  Jesse Stricker; Scott Cookson; Matthew R Bennett; William H Mather; Lev S Tsimring; Jeff Hasty
Journal:  Nature       Date:  2008-10-29       Impact factor: 49.962

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  3 in total

1.  Bistability and oscillations in co-repressive synthetic microbial consortia.

Authors:  Mehdi Sadeghpour; Alan Veliz-Cuba; Gábor Orosz; Krešimir Josić; Matthew R Bennett
Journal:  Quant Biol       Date:  2017-03-30

2.  Moran Model of Spatial Alignment in Microbial Colonies.

Authors:  B R Karamched; W Ott; I Timofeyev; R N Alnahhas; M R Bennett; K Josić
Journal:  Physica D       Date:  2019-02-18       Impact factor: 2.300

Review 3.  Synthetic biology routes to bio-artificial intelligence.

Authors:  Darren N Nesbeth; Alexey Zaikin; Yasushi Saka; M Carmen Romano; Claudiu V Giuraniuc; Oleg Kanakov; Tetyana Laptyeva
Journal:  Essays Biochem       Date:  2016-11-30       Impact factor: 8.000

  3 in total

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