Modeling Networks of Glycolysis, Overall Energy Metabolism and Drug Metabolism under a Systems Biology Approach

Author(s):  
Zoltán Sarnyai ◽  
László G. Boros
2010 ◽  
Vol 10 (8) ◽  
pp. 1046-1059 ◽  
Author(s):  
Dina Petranovic ◽  
Keith Tyo ◽  
Goutham N. Vemuri ◽  
Jens Nielsen

2014 ◽  
Vol 6 (8) ◽  
Author(s):  
Peter K Davidsen ◽  
John M Herbert ◽  
Philipp Antczak ◽  
Kim Clarke ◽  
Elisabet Ferrer ◽  
...  

Author(s):  
Alvaro Marín-Hernández ◽  
Sayra Y. López-Ramírez ◽  
Juan Carlos Gallardo-Pérez ◽  
Sara Rodríguez-Enríquez ◽  
Rafael Moreno-Sánchez ◽  
...  

2004 ◽  
Vol 9 (3) ◽  
pp. 127-135 ◽  
Author(s):  
Andrej Bugrim ◽  
Tatiana Nikolskaya ◽  
Yuri Nikolsky

2019 ◽  
Author(s):  
F. Jóhannsson ◽  
J.T. Yurkovich ◽  
S. Guðmundsson ◽  
Ó. E. Sigurjónsson ◽  
Ó. Rolfsson

AbstractTemperature plays a fundamental role in biology, influencing cellular function, affecting chemical reaction rates, molecular structures, and interactions. While the temperature dependence of many biochemical reactions is well defined in vitro, the effect of temperature on metabolic function at the network level is not well understood but remains an important challenge in optimizing the storage of cells and tissues at lower temperatures. Here, we have used time-course metabolomics data and systems biology approaches to characterize the effects of storage temperature on human platelets (PLTs) in platelet additive solution. We observed that changes to the metabolome with storage time do not simply scale with temperature but instead display complex temperature dependence, with only a small subset of metabolites following an Arrhenius-type. Investigation of PLT energy metabolism through integration with computational modeling revealed that oxidative metabolism is more sensitive to temperature changes than is glycolysis. The increased contribution of glycolysis to ATP turnover at lower temperature indicates a stronger glycolytic phenotype with decreasing storage temperature. More broadly, these results demonstrate that the temperature dependence of the PLT metabolic network is not uniform, suggesting that efforts to improve the health of stored PLTs could be targeted at specific pathways.Statement of SignificanceThe temperature dependence of cellular metabolism is difficult to study due to regulatory events that are activated upon deviation from the optimal temperature range. Platelets are blood components used in transfusion medicine but also serve as a model cell to study human energy metabolism in the absence of genetic regulation. We investigated changes in platelet metabolism at temperatures spanning from 4 °C-37 °C using a quantitative metabolic systems biology approach as opposed to assessing individual reactions. We found that energy producing metabolic pathways have different temperature sensitivities. The results define the metabolic response to temperature on the metabolic pathway level and are of importance for understanding the cryopreservation of human platelets and more complex human cells used in cellular therapy.


2018 ◽  
Vol 167 (1) ◽  
pp. 282-292 ◽  
Author(s):  
Caitlin Lynch ◽  
Bryan Mackowiak ◽  
Ruili Huang ◽  
Linhao Li ◽  
Scott Heyward ◽  
...  

Abstract The constitutive androstane receptor (CAR; NR1I3) is a nuclear receptor involved in all phases of drug metabolism and disposition. However, recently it’s been implicated in energy metabolism, tumor progression, and cancer therapy as well. It is, therefore, important to identify compounds that induce human CAR (hCAR) activation to predict drug-drug interactions and potential therapeutic usage. In this study, we screen the Tox21 10,000 compound collection to characterize hCAR activators. A potential novel structural cluster of compounds was identified, which included nitazoxanide and tenonitrozole, whereas known structural clusters, such as flavones and prazoles, were also detected. Four compounds, neticonazole, diphenamid, phenothrin, and rimcazole, have been identified as novel hCAR activators, one of which, rimcazole, shows potential selectivity toward hCAR over its sister receptor, the pregnane X receptor (PXR). All 4 compounds translocated hCAR from the cytoplasm into the nucleus demonstrating the first step to CAR activation. Profiling these compounds as hCAR activators would enable an estimation of drug-drug interactions, as well as identify prospective therapeutically beneficial drugs.


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