Literature DB >> 22057053

In silico feedback for in vivo regulation of a gene expression circuit.

Andreas Milias-Argeitis1, Sean Summers, Jacob Stewart-Ornstein, Ignacio Zuleta, David Pincus, Hana El-Samad, Mustafa Khammash, John Lygeros.   

Abstract

We show that difficulties in regulating cellular behavior with synthetic biological circuits may be circumvented using in silico feedback control. By tracking a circuit's output in Saccharomyces cerevisiae in real time, we precisely control its behavior using an in silico feedback algorithm to compute regulatory inputs implemented through a genetically encoded light-responsive module. Moving control functions outside the cell should enable more sophisticated manipulation of cellular processes whenever real-time measurements of cellular variables are possible.

Entities:  

Mesh:

Year:  2011        PMID: 22057053      PMCID: PMC4565053          DOI: 10.1038/nbt.2018

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN: 1087-0156            Impact factor:   54.908


  11 in total

1.  A light-switchable gene promoter system.

Authors:  Sae Shimizu-Sato; Enamul Huq; James M Tepperman; Peter H Quail
Journal:  Nat Biotechnol       Date:  2002-09-03       Impact factor: 54.908

Review 2.  The second wave of synthetic biology: from modules to systems.

Authors:  Priscilla E M Purnick; Ron Weiss
Journal:  Nat Rev Mol Cell Biol       Date:  2009-06       Impact factor: 94.444

Review 3.  Synthetic biology: applications come of age.

Authors:  Ahmad S Khalil; James J Collins
Journal:  Nat Rev Genet       Date:  2010-05       Impact factor: 53.242

4.  Activation of protein splicing with light in yeast.

Authors:  Amy B Tyszkiewicz; Tom W Muir
Journal:  Nat Methods       Date:  2008-02-13       Impact factor: 28.547

5.  Genetically encoded photoswitching of actin assembly through the Cdc42-WASP-Arp2/3 complex pathway.

Authors:  Daisy W Leung; Chinatsu Otomo; Joanne Chory; Michael K Rosen
Journal:  Proc Natl Acad Sci U S A       Date:  2008-08-26       Impact factor: 11.205

Review 6.  Designing customized cell signalling circuits.

Authors:  Wendell A Lim
Journal:  Nat Rev Mol Cell Biol       Date:  2010-05-19       Impact factor: 94.444

7.  Synthetic biology: new engineering rules for an emerging discipline.

Authors:  Ernesto Andrianantoandro; Subhayu Basu; David K Karig; Ron Weiss
Journal:  Mol Syst Biol       Date:  2006-05-16       Impact factor: 11.429

Review 8.  Synthetic biology.

Authors:  Steven A Benner; A Michael Sismour
Journal:  Nat Rev Genet       Date:  2005-07       Impact factor: 53.242

9.  A switchable light-input, light-output system modelled and constructed in yeast.

Authors:  Oxana Sorokina; Anita Kapus; Kata Terecskei; Laura E Dixon; Laszlo Kozma-Bognar; Ferenc Nagy; Andrew J Millar
Journal:  J Biol Eng       Date:  2009-09-17       Impact factor: 4.355

Review 10.  Eukaryotic systems broaden the scope of synthetic biology.

Authors:  Karmella A Haynes; Pamela A Silver
Journal:  J Cell Biol       Date:  2009-11-23       Impact factor: 10.539

View more
  68 in total

1.  Tracking transience: a method for dynamic monitoring of biological events in Arabidopsis thaliana biosensors.

Authors:  George Hines; Cyrus Modavi; Keni Jiang; Andrew Packard; Kameshwar Poolla; Lewis Feldman
Journal:  Planta       Date:  2015-08-30       Impact factor: 4.116

2.  Designing experiments to understand the variability in biochemical reaction networks.

Authors:  Jakob Ruess; Andreas Milias-Argeitis; John Lygeros
Journal:  J R Soc Interface       Date:  2013-08-28       Impact factor: 4.118

3.  Long-term model predictive control of gene expression at the population and single-cell levels.

Authors:  Jannis Uhlendorf; Agnès Miermont; Thierry Delaveau; Gilles Charvin; François Fages; Samuel Bottani; Gregory Batt; Pascal Hersen
Journal:  Proc Natl Acad Sci U S A       Date:  2012-08-14       Impact factor: 11.205

4.  Iterative experiment design guides the characterization of a light-inducible gene expression circuit.

Authors:  Jakob Ruess; Francesca Parise; Andreas Milias-Argeitis; Mustafa Khammash; John Lygeros
Journal:  Proc Natl Acad Sci U S A       Date:  2015-06-17       Impact factor: 11.205

5.  Light Control of Gene Expression Dynamics.

Authors:  Akihiro Isomura
Journal:  Adv Exp Med Biol       Date:  2021       Impact factor: 2.622

6.  Modelling emergence of oscillations in communicating bacteria: a structured approach from one to many cells.

Authors:  Petros Mina; Mario di Bernardo; Nigel J Savery; Krasimira Tsaneva-Atanasova
Journal:  J R Soc Interface       Date:  2013-01-06       Impact factor: 4.118

7.  A Blueprint for a Synthetic Genetic Feedback Controller to Reprogram Cell Fate.

Authors:  Domitilla Del Vecchio; Hussein Abdallah; Yili Qian; James J Collins
Journal:  Cell Syst       Date:  2017-01-05       Impact factor: 10.304

8.  High-throughput microfluidic single-cell analysis pipeline for studies of signaling dynamics.

Authors:  Ryan A Kellogg; Rafael Gómez-Sjöberg; Anne A Leyrat; Savaş Tay
Journal:  Nat Protoc       Date:  2014-06-26       Impact factor: 13.491

9.  Characterizing bacterial gene circuit dynamics with optically programmed gene expression signals.

Authors:  Evan J Olson; Lucas A Hartsough; Brian P Landry; Raghav Shroff; Jeffrey J Tabor
Journal:  Nat Methods       Date:  2014-03-09       Impact factor: 28.547

Review 10.  Optogenetic control of cell function using engineered photoreceptors.

Authors:  Gopal P Pathak; Justin D Vrana; Chandra L Tucker
Journal:  Biol Cell       Date:  2012-12-21       Impact factor: 4.458

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.