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

Milias-Argeitis, Andreas; Summers, Sean; Stewart-Ornstein, Jacob; Zuleta, Ignacio; Pincus, David; El-Samad, Hana; Khammash, Mustafa; Lygeros, John
December 2011
Nature Biotechnology;Dec2011, Vol. 29 Issue 12, p1114
Academic Journal
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.


Related Articles

  • Heterologous Expression of Glycerol 3-Phosphate Dehydrogenase Gene [ DhGPD1] from the Osmotolerant Yeast Debaryomyces hansenii in Saccharomyces cerevisiae. Thomé, Patricia // Current Microbiology;Aug2005, Vol. 51 Issue 2, p87 

    The role for the gene encoding glycerol 3-phosphate dehydrogenase ( DhGPD1) from the osmotolerant yeast Debaryomyces hansenii, in glycerol production and halotolerance, was studied through its heterologous expression in a Saccharomyces cerevisiae strain deficient in glycerol synthesis (...

  • Statistical inference of the time-varying structure of gene-regulation networks. Lèbre, Sophie; Becq, Jennifer; Devaux, Frédéric; Stumpf, Michael P. H.; Lelandais, Gaëlle // BMC Systems Biology;2010, Vol. 4, p130 

    Background: Biological networks are highly dynamic in response to environmental and physiological cues. This variability is in contrast to conventional analyses of biological networks, which have overwhelmingly employed static graph models which stay constant over time to describe biological...

  • Expression dynamics of a cellular metabolic network. Kharchenko, Peter; Church, George M.; Vitkup, Dennis // Molecular Systems Biology;2005, Vol. 1 Issue 1, pE1 

    Toward the goal of understanding system properties of biological networks, we investigate the global and local regulation of gene expression in the Saccharomyces cerevisiae metabolic network. Our results demonstrate predominance of local gene regulation in metabolism. Metabolic genes display...

  • How cohesin and CTCF cooperate in regulating gene expression. Kerstin Wendt; Jan-Michael Peters // Chromosome Research;Feb2009, Vol. 17 Issue 2, p201 

    Abstract  Cohesin is a DNA-binding protein complex that is essential for sister chromatid cohesion and facilitates the repair of damaged DNA. In addition, cohesin has important roles in regulating gene expression, but the molecular mechanisms of this function are poorly understood. Recent...

  • On the Measurement of Genetic Interactions. de Jong, Edwin; Franke, Lude; Siebes, Arno // AIP Conference Proceedings;9/18/2007, Vol. 940 Issue 1, p16 

    Reverse-engineering of genetic interaction networks is one of the primary goals of current bio-informatics research. Accurate knowledge of these networks is of crucial concern for both biological and medical understanding of biological function, and is relevant to the investigation of diseases...

  • Sequential Metabolic Phases as a Means to Optimize Cellular Output in a Constant Environment. Palinkas, Aljoscha; Bulik, Sascha; Bockmayr, Alexander; Holzhütter, Hermann-Georg // PLoS ONE;Mar2015, Vol. 10 Issue 3, p1 

    Temporal changes of gene expression are a well-known regulatory feature of all cells, which is commonly perceived as a strategy to adapt the proteome to varying external conditions. However, temporal (rhythmic and non-rhythmic) changes of gene expression are also observed under virtually...

  • Mucin Gene Expression in Human Laryngeal Epithelia: Effect of Laryngopharyngeal Reflux. Samuels, Tina L.; Handler, Ethan; Syring, Michael L.; Pajewski, Nicholas M.; Blumin, Joel H.; Kerschner, Joseph E.; Johnston, Nikki // Annals of Otology, Rhinology & Laryngology;Sep2008, Vol. 117 Issue 9, p688 

    The article reports on the mucin gene expression in human laryngeal epithelia, effect of laryngopharyngeal reflux. It discusses that the Laryngeal biopsy specimens were obtained from 3 patients with clinically diagnosed laryngopharyngeal reflux and from 2 control subjects who had no signs or...

  • Genetic regulators of large-scale transcriptional signatures in cancer. Adler, Adam S.; Meihong Lin; Horlings, Hugo; Nuyten, Dimitry S. A.; van de Vijver, Marc J.; Chang, Howard Y. // Nature Genetics;Apr2006, Vol. 38 Issue 4, p421 

    Gene expression signatures encompassing dozens to hundreds of genes have been associated with many important parameters of cancer, but mechanisms of their control are largely unknown. Here we present a method based on genetic linkage that can prospectively identify functional regulators driving...

  • Screen of MicroRNA Targets in Zebrafish Using Heterogeneous Data Sources: A Case Study for Dre-miR-10 and Dre-miR-196. Yanju Zhang; Woltering, Joost M.; Verbeek, Fons J. // Proceedings of World Academy of Science: Engineering & Technolog;Dec2007, Vol. 36, p258 

    It has been established that microRNAs (miRNAs) play an important role in gene expression by post-transcriptional regulation of messengerRNAs (mRNAs). However, the precise relationships between microRNAs and their target genes in sense of numbers, types and biological relevance remain largely...


Read the Article


Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics