Literature DB >> 31542413

A Comprehensive Network Atlas Reveals That Turing Patterns Are Common but Not Robust.

Natalie S Scholes1, David Schnoerr1, Mark Isalan2, Michael P H Stumpf3.   

Abstract

Turing patterns (TPs) underlie many fundamental developmental processes, but they operate over narrow parameter ranges, raising the conundrum of how evolution can ever discover them. Here we explore TP design space to address this question and to distill design rules. We exhaustively analyze 2- and 3-node biological candidate Turing systems, amounting to 7,625 networks and more than 3 × 1011 analyzed scenarios. We find that network structure alone neither implies nor guarantees emergent TPs. A large fraction (>61%) of network design space can produce TPs, but these are sensitive to even subtle changes in parameters, network structure, and regulatory mechanisms. This implies that TP networks are more common than previously thought, and evolution might regularly encounter prototypic solutions. We deduce compositional rules for TP systems that are almost necessary and sufficient (96% of TP networks contain them, and 92% of networks implementing them produce TPs). This comprehensive network atlas provides the blueprints for identifying natural TPs and for engineering synthetic systems.
Copyright © 2019. Published by Elsevier Inc.

Entities:  

Keywords:  developmental patterning; network atlas; reaction-diffusion systems; synthetic biology

Year:  2019        PMID: 31542413     DOI: 10.1016/j.cels.2019.07.007

Source DB:  PubMed          Journal:  Cell Syst        ISSN: 2405-4712            Impact factor:   10.304


  16 in total

Review 1.  Pattern formation features might explain homoplasy: fertile surfaces in higher fungi as an example.

Authors:  Francisco Kuhar; Leticia Terzzoli; Eduardo Nouhra; Gerardo Robledo; Moritz Mercker
Journal:  Theory Biosci       Date:  2022-02-16       Impact factor: 1.919

2.  A group theoretic approach to model comparison with simplicial representations.

Authors:  Sean T Vittadello; Michael P H Stumpf
Journal:  J Math Biol       Date:  2022-10-09       Impact factor: 2.164

3.  Isolating Patterns in Open Reaction-Diffusion Systems.

Authors:  Andrew L Krause; Václav Klika; Philip K Maini; Denis Headon; Eamonn A Gaffney
Journal:  Bull Math Biol       Date:  2021-06-04       Impact factor: 1.758

Review 4.  Synthetic spatial patterning in bacteria: advances based on novel diffusible signals.

Authors:  Martina Oliver Huidobro; Jure Tica; Georg K A Wachter; Mark Isalan
Journal:  Microb Biotechnol       Date:  2021-11-29       Impact factor: 6.575

Review 5.  Pattern formation mechanisms of self-organizing reaction-diffusion systems.

Authors:  Amit N Landge; Benjamin M Jordan; Xavier Diego; Patrick Müller
Journal:  Dev Biol       Date:  2020-01-30       Impact factor: 3.582

6.  Influence of survival, promotion, and growth on pattern formation in zebrafish skin.

Authors:  Christopher Konow; Ziyao Li; Samantha Shepherd; Domenico Bullara; Irving R Epstein
Journal:  Sci Rep       Date:  2021-05-10       Impact factor: 4.379

7.  A single-cell resolved cell-cell communication model explains lineage commitment in hematopoiesis.

Authors:  Megan K Rommelfanger; Adam L MacLean
Journal:  Development       Date:  2021-12-22       Impact factor: 6.868

8.  Cellular Dialogues: Cell-Cell Communication through Diffusible Molecules Yields Dynamic Spatial Patterns.

Authors:  Yiteng Dang; Douwe A J Grundel; Hyun Youk
Journal:  Cell Syst       Date:  2020-01-15       Impact factor: 10.304

9.  Multi-model and network inference based on ensemble estimates: avoiding the madness of crowds.

Authors:  Michael P H Stumpf
Journal:  J R Soc Interface       Date:  2020-10-21       Impact factor: 4.118

10.  Perturbation analysis of a multi-morphogen Turing reaction-diffusion stripe patterning system reveals key regulatory interactions.

Authors:  Andrew D Economou; Nicholas A M Monk; Jeremy B A Green
Journal:  Development       Date:  2020-10-29       Impact factor: 6.862

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.