Loss of variation of state detected in soybean metabolic and human myelomonocytic leukaemia cell transcriptional networks under external stimuli

Abstract
Soybean (Glycine max) is sensitive to flooding stress, and flood damage at the seedling stage is a barrier to growth. We constructed two mathematical models of the soybean metabolic network, a control model and a flooded model, from metabolic profiles in soybean plants. We simulated the metabolic profiles with perturbations before and after the flooding stimulus using the two models. We measured the variation of state that the system could maintain from a state–space description of the simulated profiles. The results showed a loss of variation of state during the flooding response in the soybean plants. Loss of variation of state was also observed in a human myelomonocytic leukaemia cell transcriptional network in response to a phorbol-ester stimulus. Thus, we detected a loss of variation of state under external stimuli in two biological systems, regardless of the regulation and stimulus types. Our results suggest that a loss of robustness may occur concurrently with the loss of variation of state in biological systems. We describe the possible applications of the quantity of variation of state in plant genetic engineering and cell biology. Finally, we present a hypothetical “external stimulus-induced information loss” model of biological systems.

Citation
Sakata K, Saito T, Ohyanagi H, Okumura J, Ishige K, et al. (2016) Loss of variation of state detected in soybean metabolic and human myelomonocytic leukaemia cell transcriptional networks under external stimuli. Scientific Reports 6: 35946. Available: http://dx.doi.org/10.1038/srep35946.

Acknowledgements
We thank Prof. M. Okamoto and Dr. T. Sekiguchi for supplying the Winbest-kit program, and Takumi Hidaka for editing analytical data. This study was supported by the Japan Society for the Promotion of Science Grants-in-Aid for Scientific Research (Grant Nos 26540157 and 16K00399), and partly supported by research grants from the Ministry of Education, Culture, Sports, Science and Technology, Japan for the RIKEN Centre for Life Science Technologies.

Publisher
Springer Nature

Journal
Scientific Reports

DOI
10.1038/srep35946

Additional Links
http://www.nature.com/articles/srep35946

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