scholarly journals Cell-Free Characterization of Coherent Feed-Forward Loop-Based Synthetic Genetic Circuits

2021 ◽  
Author(s):  
Pascal A. Pieters ◽  
Bryan L. Nathalia ◽  
Ardjan J. van der Linden ◽  
Peng Yin ◽  
Jongmin Kim ◽  
...  
Keyword(s):  
Genetic Circuits ◽  
Feed Forward ◽  
Feed Forward Loop

scholarly journals Cell-Free Characterization of Coherent Feed-Forward Loop-Based Synthetic Genetic Circuits

2021 ◽  
Author(s):  
Pascal A. Pieters ◽  
Bryan L. Nathalia ◽  
Ardjan J. van der Linden ◽  
Peng Yin ◽  
Jongmin Kim ◽  
...  
Keyword(s):  
Fold Change ◽  
Translation System ◽  
Noise Filtering ◽  
Genetic Circuits ◽  
Flow Reactors ◽  
Feed Forward ◽  
Regulatory Pathways ◽  
Feed Forward Loop ◽  
Reference Circuit ◽  
Circuit Components

AbstractRegulatory pathways inside living cells employ feed-forward architectures to fulfill essential signal processing functions that aide in the interpretation of various types of inputs through noise-filtering, fold-change detection and adaptation. Although it has been demonstrated computationally that a coherent feed-forward loop (CFFL) can function as noise filter, a property essential to decoding complex temporal signals, this motif has not been extensively characterized experimentally or integrated into larger networks. Here we use post-transcriptional regulation to implement and characterize a synthetic CFFL in an Escherichia coli cell-free transcription-translation system and build larger composite feed-forward architectures. We employ microfluidic flow reactors to probe the response of the CFFL circuit using both persistent and short, noise-like inputs and analyze the influence of different circuit components on the steady-state and dynamics of the output. We demonstrate that our synthetic CFFL implementation can reliably repress background activity compared to a reference circuit, but displays low potential as a temporal filter, and validate these findings using a computational model. Our results offer practical insight into the putative noise-filtering behavior of CFFLs and show that this motif can be used to mitigate leakage and increase the fold-change of the output of synthetic genetic circuits.

scholarly journals Characterization of noise in multistable genetic circuits reveals ways to modulate heterogeneity

PLoS ONE ◽  
2018 ◽  
Vol 13 (3) ◽  
pp. e0194779 ◽  
Author(s):  
Sayuri Katharina Hortsch ◽  
Andreas Kremling
Keyword(s):  
Genetic Circuits

scholarly journals Tumor VEGF:VEGFR2 autocrine feed-forward loop triggers angiogenesis in lung cancer

2013 ◽  
Vol 123 (7) ◽  
pp. 3183-3183 ◽  
Author(s):  
Sampurna Chatterjee ◽  
Lukas C. Heukamp ◽  
Maike Siobal ◽  
Jakob Schöttle ◽  
Caroline Wieczorek ◽  
...  
Keyword(s):  
Lung Cancer ◽  
Feed Forward ◽  
Feed Forward Loop

scholarly journals A feed-forward loop guarantees robust behavior in Escherichia coli carbohydrate uptake

2008 ◽  
Vol 24 (5) ◽  
pp. 704-710 ◽  
Author(s):  
A. Kremling ◽  
K. Bettenbrock ◽  
E. D. Gilles
Keyword(s):  
Escherichia Coli ◽  
Feed Forward ◽  
Feed Forward Loop

Semaphorin 4A acts in a feed-forward loop with NF-κB pathway to exacerbate catabolic effect of IL-1β on chondrocytes

2019 ◽  
Vol 69 ◽  
pp. 88-94 ◽  
Author(s):  
Hua Zhang ◽  
Qiushi Wei ◽  
Xiaobing Xiang ◽  
Bengen Zhou ◽  
Jianfa Chen ◽  
...  
Keyword(s):  
Feed Forward ◽  
Feed Forward Loop

scholarly journals Subclinical atherosclerosis and its progression are modulated byPLIN2through a feed‐forward loop between LXR and autophagy

2019 ◽  
Vol 286 (6) ◽  
pp. 660-675 ◽  
Author(s):  
P. Saliba‐Gustafsson ◽  
M. Pedrelli ◽  
K. Gertow ◽  
O. Werngren ◽  
V. Janas ◽  
...  
Keyword(s):  
Subclinical Atherosclerosis ◽  
Feed Forward ◽  
Feed Forward Loop
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