TY - JOUR
T1 - The role of criticality of gene regulatory networks in morphogenesis
AU - Kim, Hyobin
AU - Sayama, Hiroki
N1 - Funding Information:
Manuscript received October 6, 2017; revised August 8, 2018 and October 8, 2018; accepted October 11, 2018. Date of publication October 15, 2018; date of current version September 9, 2020. This work was supported by the U.S. National Science Foundation under Grant 1319152. (Corresponding author: Hyobin Kim.) H. Kim is with the Center for Complexity Sciences, National Autonomous University of Mexico, Mexico City 04510, Mexico (e-mail: hyobin.kim@c3.unam.mx).
Publisher Copyright:
© 2016 IEEE.
PY - 2020/9
Y1 - 2020/9
N2 - Gene regulatory network (GRN)-based morphogenetic models have recently gained an increasing attention. However, the relationship between microscopic properties of intracellular GRNs and macroscopic properties of morphogenetic systems has not been fully understood yet. Here, we propose a theoretical morphogenetic model representing an aggregation of cells, and reveal the relationship between criticality of GRNs and morphogenetic pattern formation. In our model, the positions of the cells are determined by spring-mass-damper kinetics. Each cell has an identical Kauffman's NK random Boolean network (RBN) as its GRN. We varied the properties of GRNs from ordered, through critical, to chaotic by adjusting node in-degree K. We randomly assigned four cell fates to the attractors of RBNs for cellular behaviors. By comparing diverse morphologies generated in our morphogenetic systems, we investigated what the role of the criticality of GRNs is in forming morphologies. We found that nontrivial spatial patterns were generated most frequently when GRNs were at criticality. Our finding indicates that the criticality of GRNs facilitates the formation of nontrivial morphologies in GRN-based morphogenetic systems.
AB - Gene regulatory network (GRN)-based morphogenetic models have recently gained an increasing attention. However, the relationship between microscopic properties of intracellular GRNs and macroscopic properties of morphogenetic systems has not been fully understood yet. Here, we propose a theoretical morphogenetic model representing an aggregation of cells, and reveal the relationship between criticality of GRNs and morphogenetic pattern formation. In our model, the positions of the cells are determined by spring-mass-damper kinetics. Each cell has an identical Kauffman's NK random Boolean network (RBN) as its GRN. We varied the properties of GRNs from ordered, through critical, to chaotic by adjusting node in-degree K. We randomly assigned four cell fates to the attractors of RBNs for cellular behaviors. By comparing diverse morphologies generated in our morphogenetic systems, we investigated what the role of the criticality of GRNs is in forming morphologies. We found that nontrivial spatial patterns were generated most frequently when GRNs were at criticality. Our finding indicates that the criticality of GRNs facilitates the formation of nontrivial morphologies in GRN-based morphogenetic systems.
KW - Cell fate
KW - criticality
KW - gene regulatory network (GRN)
KW - morphogenetic pattern
KW - morphogenetic system
KW - random Boolean network (RBN)
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U2 - 10.1109/TCDS.2018.2876090
DO - 10.1109/TCDS.2018.2876090
M3 - Article
AN - SCOPUS:85055026096
SN - 2379-8920
VL - 12
SP - 390
EP - 400
JO - IEEE Transactions on Cognitive and Developmental Systems
JF - IEEE Transactions on Cognitive and Developmental Systems
IS - 3
M1 - 8491333
ER -