TY - JOUR
T1 - Coordinated Spatial Pattern Formation in Biomolecular Communication Networks
AU - Hori, Yutaka
AU - Miyazako, Hiroki
AU - Kumagai, Soichiro
AU - Hara, Shinji
N1 - Funding Information:
Manuscript received May 11, 2015; revised September 21, 2015; accepted November 5, 2015. Date of publication November 12, 2015; date of current version January 14, 2016. This work was supported in part by Grant-in-Aid for Scientific Research (A) of the Ministry of Education, Culture, Sports, Science, and Technology, Japan, under Grant 21246067, and in part by Grant-in-Aid for JSPS Fellows under Grant 15J09841. The work of Y. Hori was supported by JSPS Fellowship for Research Abroad. The associate editor coordinating the review of this paper and approving it for publication was B. Aazhang.
Publisher Copyright:
© 2015 IEEE.
PY - 2015/6
Y1 - 2015/6
N2 - This paper proposes a control theoretic framework to model and analyze the self-organized pattern formation of molecular concentrations in biomolecular communication networks, emerging applications in synthetic biology. In biomolecular communication networks, bionanomachines, or biological cells, communicate with each other using a cell-to-cell communication mechanism mediated by a diffusible signaling molecule, thereby the dynamics of molecular concentrations are approximately modeled as a reaction-diffusion system with a single diffuser. We first introduce a feedback model representation of the reaction-diffusion system and provide a systematic local stability/instability analysis tool using the root locus of the feedback system. The instability analysis then allows us to analytically derive the conditions for the self-organized spatial pattern formation, or Turing pattern formation, of the bionanomachines. We propose a novel synthetic biocircuit motif called activator-repressor-diffuser system and show that it is one of the minimum biomolecular circuits that admit self-organized patterns over cell population.
AB - This paper proposes a control theoretic framework to model and analyze the self-organized pattern formation of molecular concentrations in biomolecular communication networks, emerging applications in synthetic biology. In biomolecular communication networks, bionanomachines, or biological cells, communicate with each other using a cell-to-cell communication mechanism mediated by a diffusible signaling molecule, thereby the dynamics of molecular concentrations are approximately modeled as a reaction-diffusion system with a single diffuser. We first introduce a feedback model representation of the reaction-diffusion system and provide a systematic local stability/instability analysis tool using the root locus of the feedback system. The instability analysis then allows us to analytically derive the conditions for the self-organized spatial pattern formation, or Turing pattern formation, of the bionanomachines. We propose a novel synthetic biocircuit motif called activator-repressor-diffuser system and show that it is one of the minimum biomolecular circuits that admit self-organized patterns over cell population.
KW - Molecular communication networks
KW - Stability analysis
KW - Turing pattern
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U2 - 10.1109/TMBMC.2015.2500567
DO - 10.1109/TMBMC.2015.2500567
M3 - Article
AN - SCOPUS:85071699948
VL - 1
SP - 111
EP - 121
JO - IEEE Transactions on Molecular, Biological, and Multi-Scale Communications
JF - IEEE Transactions on Molecular, Biological, and Multi-Scale Communications
SN - 2332-7804
IS - 2
M1 - 7328285
ER -