Literature DB >> 24910431

Negative feedback in genetic circuits confers evolutionary resilience and capacitance.

David C Marciano1, Rhonald C Lua2, Panagiotis Katsonis2, Shivas R Amin3, Christophe Herman2, Olivier Lichtarge4.   

Abstract

Natural selection for specific functions places limits upon the amino acid substitutions a protein can accept. Mechanisms that expand the range of tolerable amino acid substitutions include chaperones that can rescue destabilized proteins and additional stability-enhancing substitutions. Here, we present an alternative mechanism that is simple and uses a frequently encountered network motif. Computational and experimental evidence shows that the self-correcting, negative-feedback gene regulation motif increases repressor expression in response to deleterious mutations and thereby precisely restores repression of a target gene. Furthermore, this ability to rescue repressor function is observable across the Eubacteria kingdom through the greater accumulation of amino acid substitutions in negative-feedback transcription factors compared to genes they control. We propose that negative feedback represents a self-contained genetic canalization mechanism that preserves phenotype while permitting access to a wider range of functional genotypes.
Copyright © 2014 The Authors. Published by Elsevier Inc. All rights reserved.

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Year:  2014        PMID: 24910431      PMCID: PMC4103627          DOI: 10.1016/j.celrep.2014.05.018

Source DB:  PubMed          Journal:  Cell Rep            Impact factor:   9.423


  45 in total

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Journal:  Proc Natl Acad Sci U S A       Date:  2011-06-01       Impact factor: 11.205

Review 2.  The role of robustness in phenotypic adaptation and innovation.

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3.  SOS regulatory elements are essential for UPEC pathogenesis.

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Journal:  Microbes Infect       Date:  2010-05-11       Impact factor: 2.700

Review 4.  Molecular mechanisms of robustness in plants.

Authors:  Janne Lempe; Jennifer Lachowiec; Alessandra M Sullivan; Christine Queitsch
Journal:  Curr Opin Plant Biol       Date:  2012-12-30       Impact factor: 7.834

5.  Negative feedback confers mutational robustness in yeast transcription factor regulation.

Authors:  Charles M Denby; Joo Hyun Im; Richard C Yu; C Gustavo Pesce; Rachel B Brem
Journal:  Proc Natl Acad Sci U S A       Date:  2012-02-21       Impact factor: 11.205

6.  Intrinsic negative feedback governs activation surge in two-component regulatory systems.

Authors:  Won-Sik Yeo; Igor Zwir; Henry V Huang; Dongwoo Shin; Akinori Kato; Eduardo A Groisman
Journal:  Mol Cell       Date:  2012-02-10       Impact factor: 17.970

7.  Hsp90 and environmental stress transform the adaptive value of natural genetic variation.

Authors:  Daniel F Jarosz; Susan Lindquist
Journal:  Science       Date:  2010-12-24       Impact factor: 47.728

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Journal:  Nucleic Acids Res       Date:  2012-11-17       Impact factor: 16.971

9.  Combined model of intrinsic and extrinsic variability for computational network design with application to synthetic biology.

Authors:  Tina Toni; Bruce Tidor
Journal:  PLoS Comput Biol       Date:  2013-03-28       Impact factor: 4.475

10.  Transferring a synthetic gene circuit from yeast to mammalian cells.

Authors:  Dmitry Nevozhay; Tomasz Zal; Gábor Balázsi
Journal:  Nat Commun       Date:  2013       Impact factor: 14.919

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  10 in total

1.  Intramolecular phenotypic capacitance in a modular RNA molecule.

Authors:  Eric J Hayden; Devin P Bendixsen; Andreas Wagner
Journal:  Proc Natl Acad Sci U S A       Date:  2015-09-23       Impact factor: 11.205

2.  Synthetic negative feedback circuits using engineered small RNAs.

Authors:  Ciarán L Kelly; Andreas W K Harris; Harrison Steel; Edward J Hancock; John T Heap; Antonis Papachristodoulou
Journal:  Nucleic Acids Res       Date:  2018-10-12       Impact factor: 16.971

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Journal:  Plant Mol Biol       Date:  2018-08-31       Impact factor: 4.076

4.  Nonlinear Dynamics in Gene Regulation Promote Robustness and Evolvability of Gene Expression Levels.

Authors:  Arno Steinacher; Declan G Bates; Ozgur E Akman; Orkun S Soyer
Journal:  PLoS One       Date:  2016-04-15       Impact factor: 3.240

5.  Cooperativity of Negative Autoregulation Confers Increased Mutational Robustness.

Authors:  David C Marciano; Rhonald C Lua; Christophe Herman; Olivier Lichtarge
Journal:  Phys Rev Lett       Date:  2016-06-22       Impact factor: 9.161

6.  CRISPR-FRT targets shared sites in a knock-out collection for off-the-shelf genome editing.

Authors:  Toon Swings; David C Marciano; Benu Atri; Rachel E Bosserman; Chen Wang; Marlies Leysen; Camille Bonte; Thomas Schalck; Ian Furey; Bram Van den Bergh; Natalie Verstraeten; Peter J Christie; Christophe Herman; Olivier Lichtarge; Jan Michiels
Journal:  Nat Commun       Date:  2018-06-08       Impact factor: 14.919

7.  Multiscale effects of heating and cooling on genes and gene networks.

Authors:  Daniel A Charlebois; Kevin Hauser; Sylvia Marshall; Gábor Balázsi
Journal:  Proc Natl Acad Sci U S A       Date:  2018-10-19       Impact factor: 11.205

8.  Single-molecule imaging of LexA degradation in Escherichia coli elucidates regulatory mechanisms and heterogeneity of the SOS response.

Authors:  Emma C Jones; Stephan Uphoff
Journal:  Nat Microbiol       Date:  2021-06-28       Impact factor: 17.745

9.  Comparative transcriptome analysis identified important genes and regulatory pathways for flower color variation in Paphiopedilum hirsutissimum.

Authors:  Xiuling Li; Jizheng Fan; Shuming Luo; Ling Yin; Hongying Liao; Xueqiang Cui; Jingzhou He; Yanhua Zeng; Junjie Qu; Zhaoyang Bu
Journal:  BMC Plant Biol       Date:  2021-10-27       Impact factor: 4.215

Review 10.  Genome interpretation using in silico predictors of variant impact.

Authors:  Panagiotis Katsonis; Kevin Wilhelm; Amanda Williams; Olivier Lichtarge
Journal:  Hum Genet       Date:  2022-04-30       Impact factor: 5.881

  10 in total

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