Literature DB >> 33547135

Precision of tissue patterning is controlled by dynamical properties of gene regulatory networks.

Katherine Exelby1, Edgar Herrera-Delgado2,3,4, Lorena Garcia Perez1, Ruben Perez-Carrasco5, Andreas Sagner1,6, Vicki Metzis1,7, Peter Sollich8,9, James Briscoe2.   

Abstract

During development, gene regulatory networks allocate cell fates by partitioning tissues into spatially organised domains of gene expression. How the sharp boundaries that delineate these gene expression patterns arise, despite the stochasticity associated with gene regulation, is poorly understood. We show, in the vertebrate neural tube, using perturbations of coding and regulatory regions, that the structure of the regulatory network contributes to boundary precision. This is achieved, not by reducing noise in individual genes, but by the configuration of the network modulating the ability of stochastic fluctuations to initiate gene expression changes. We use a computational screen to identify network properties that influence boundary precision, revealing two dynamical mechanisms by which small gene circuits attenuate the effect of noise in order to increase patterning precision. These results highlight design principles of gene regulatory networks that produce precise patterns of gene expression.
© 2021. Published by The Company of Biologists Ltd.

Entities:  

Keywords:  Dynamical systems theory; Gene regulatory network; Morphogen signaling; Neural tube; cis regulatory elements

Mesh:

Substances:

Year:  2021        PMID: 33547135      PMCID: PMC7929933          DOI: 10.1242/dev.197566

Source DB:  PubMed          Journal:  Development        ISSN: 0950-1991            Impact factor:   6.868


  76 in total

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Journal:  Nat Methods       Date:  2012-06-28       Impact factor: 28.547

Review 4.  The molecular basis for metameric pattern in the Drosophila embryo.

Authors:  M Akam
Journal:  Development       Date:  1987-09       Impact factor: 6.868

Review 5.  Nature, nurture, or chance: stochastic gene expression and its consequences.

Authors:  Arjun Raj; Alexander van Oudenaarden
Journal:  Cell       Date:  2008-10-17       Impact factor: 41.582

6.  An atlas of gene regulatory networks reveals multiple three-gene mechanisms for interpreting morphogen gradients.

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Journal:  Mol Syst Biol       Date:  2010-11-02       Impact factor: 11.429

7.  In vitro generation of neuromesodermal progenitors reveals distinct roles for wnt signalling in the specification of spinal cord and paraxial mesoderm identity.

Authors:  Mina Gouti; Anestis Tsakiridis; Filip J Wymeersch; Yali Huang; Jens Kleinjung; Valerie Wilson; James Briscoe
Journal:  PLoS Biol       Date:  2014-08-26       Impact factor: 8.029

8.  Shadow Enhancers Are Pervasive Features of Developmental Regulatory Networks.

Authors:  Enrico Cannavò; Pierre Khoueiry; David A Garfield; Paul Geeleher; Thomas Zichner; E Hilary Gustafson; Lucia Ciglar; Jan O Korbel; Eileen E M Furlong
Journal:  Curr Biol       Date:  2015-12-10       Impact factor: 10.834

9.  Multi-enhancer transcriptional hubs confer phenotypic robustness.

Authors:  Albert Tsai; Mariana Rp Alves; Justin Crocker
Journal:  Elife       Date:  2019-07-11       Impact factor: 8.140

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Journal:  Nat Commun       Date:  2014-09-23       Impact factor: 14.919

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  4 in total

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2.  Elucidating multi-input processing 3-node gene regulatory network topologies capable of generating striped gene expression patterns.

Authors:  Juan Camilo Arboleda-Rivera; Gloria Machado-Rodríguez; Boris A Rodríguez; Jayson Gutiérrez
Journal:  PLoS Comput Biol       Date:  2022-02-14       Impact factor: 4.475

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Journal:  Nat Commun       Date:  2022-03-03       Impact factor: 14.919

4.  Dynamical modules in metabolism, cell and developmental biology.

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