ISB_KM_metab_en

It is possible to say that classical task for kinetic modeling of biochemical system is research of cell metabolism. This fact may be explained that historically the development of this approach began from investigation of main metabolic pathways. Therefore we give to this field significant attention and time that allow reaching certain achievements. Moreover, development in the recent years such experimental discipline as metabolomics, trancriptomics, proteomics, etc essentially keeps the interest to the problems of cell metabolism.

At the same time inspiring amount of received quantitative experimental data are analyzed and processed still insufficiently. In connected with the fact that it is difficult to understand the great amount of experimental data without special theoretic approaches. Especially as the systems being investigated have often very difficult structural and regulatory nets. As a result, kinetic modeling should solve following tasks – collect this information in a single whole and try to remove by that unsolved problems, existing in the knowledge of cell metabolism.



Fatty acids metabolism in mammalian hepatocytes

FA_1_ruModel of fatty acids metabolism in hepatocytes is developed in the framework of Etherpaths project (FP7) - Characterization and modelling of dietary effects mediated by gut microbiota on lipid metabolism, which is focused on the systems biology of lipid nutrition. It is known that liver is a key player in a lipid metabolism. That is why the modeling of lipids interconversion in hepatocytes is a necessary stage of the Etherpaths project development and a link between models of central carbon metabolism and systemic lipid metabolism in the whole organism, which are also constructed in the framework of this project. On this stage of our work developed model describes the metabolism of three FA (palmitate, stearate and alpha-linolenate) in hepatocyte and formation of triglycerides, phospholipids and cholesterol as parts of VLDL-particle. The model includes the processes of FA beta-oxidation, de novo synthesis and elongation.

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Glycolysis in hepatocytes

HKII_engGlycolysis could be justly considered as one of the main and most studied biochemical pathways in the cell. Historically, the research of cell metabolism began exactly from this pathway. However, in spite of this it plays the main role not in all types of cells, because the rate of this process and loading on it significantly depends on carbon source in the medium and presence of oxygen.

The object of our research is glycolysis it mammalian liver cells, where load on it is big enough. Moreover, this process has two significant differences in comparison with analogical ones in the others organisms. xactly on the mammalian liver cells the connection of apoptosis directly with central cellular metabolism was found. It is very important step in the research of this phenomenon, because it have been earlier believed that only special special extracellular signal factors (TNF) or intramitochondrial regulatory processes (Bcl-like protens) can start the processes of cell suicide.

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Modeling of a synthesis of rRNAs in yeasts

 Ribosomes of all organisms are the main factor taking part in the translation. Ribosomes realize two main functions - messenger RNA decoding and peptide bridge formation. These two activities are located in the two big ribonucleoprotein parts of unequial sizes – ribosomal subunits. Every subunit contains one or more ribosomal RNA (rRNA) and many ribosomal proteins (r-proteins). Small subunit (30S in bacteria and 40S in eukaryotes) has decoding function, whereas bid subunit (50S in bacteria and 60S in eukaryotes) catalyses peptide bridge formation.

During RYBOSYS project organized at the 6-th framework programme we have developed several models of rRNA processing. These models have been used for prediction of system properties of rRNA synthesis and analysis of specific experimental data.

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Kinetic modeling of choloroplast electron-transport chain

Photosynthesis_1We have been studied primary processes of photosynthesis analogously to studies of mitochondrion electron transport chain. Main idea of our approach is a detail description of functional properties  of multisubunit electron transport complexes.

AIM OF THE PROJECT: to develop kinetic model of primary photosynthetic processes taking into account dependence of individual reaction rates of electron transfer on transmembrane electric potential. To apply this model to estimate Effects of inhibitors of electron transfer on primary photosynthetic reactions.

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Electronic mitochondrion of mammalian cells

The last decades was marked by great number of achievement in the understanding of life basis. The new volume of knowledge led to principally new approaches both in the biology and in the different biomedical supplements. Progress touched on not only diagnostic methods but also notions about course of diseases and therapy directly. The appropriate evolutional transition from curing of organism and organs to the cellular (as well as sub-cellular and genetic) therapy takes place.

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