Abstract
Mesenchymal stem cells (MSCs) can be isolated from several tissues of adults. In addition, MSCs have the potential of differentiation into several cell types. Therefore, MSCs are very useful in stem cell therapy and regenerative medicine. MSCs have also been used as gene or protein carriers. As a result, maintaining MSCs in a desirable metabolic state has been the subject of several studies. Here, we used a genome scale metabolic network model of bone marrow derived MSCs for exploring the metabolism of these cells. We analyzed metabolic fluxes of the model in order to find ways of increasing stem cell proliferation and differentiation. Consequently, the experimental results were in consistency with computational results. Therefore, analyzing metabolic models was proven to be a promising field in biomedical researches of stem cells.
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Altamirano C, Paredes C, Illanes A, Cairo J, Godia F (2004) Strategies for fed-batch cultivation of t-PA producing CHO cells: substitution of glucose and glutamine and rational design of culture medium. J Biotechnol 110:171–179
Antoniewicz MR (2015) Methods and advances in metabolic flux analysis: a mini-review. J Ind Microbiol Biotechnol 42:317–325
Becker SA, Feist AM, Mo ML, Hannum G, Palsson BØ, Herrgard MJ (2007) Quantitative prediction of cellular metabolism with constraint-based models: the COBRA toolbox. Nat Protoc 2:727–738
Burgard AP, Nikolaev EV, Schilling CH, Maranas CD (2004) Flux coupling analysis of genome-scale metabolic network reconstructions. Genome Res 14:301–312
Bürgermeister M, Birner-Grünberger R, Nebauer R, Daum G (2004) Contribution of different pathways to the supply of phosphatidylethanolamine and phosphatidylcholine to mitochondrial membranes of the yeast Saccharomyces cerevisiae. Biochim Biophys Acta 1686:161–168
Castro PM, Hayter PM, Ison AP, Bull AT (1992) Application of a statistical design to the optimization of culture medium for recombinant interferon-gamma production by Chinese hamster ovary cells. Appl Microbiol Biotechnol 38:84–90
Chang RL, Xie L, Xie L, Bourne PE, Palsson BØ (2010) Drug off-target effects predicted using structural analysis in the context of a metabolic network model. PLoS Comput Biol 6:e1000938
Fell DA, Small JR (1986) Fat synthesis in adipose tissue. An examination of stoichiometric constraints. Biochem J 238:781–786
Fouladiha H, Marashi S-A (2017) Biomedical applications of cell-and tissue-specific metabolic network models. J Biomed Inform 68:35–49
Fouladiha H, Marashi SA, Shokrgozar MA (2015) Reconstruction and validation of a constraint-based metabolic network model for bone marrow-derived mesenchymal stem cells. Cell Prolif 48:475–485
Goldbeter A, Lefever R (1972) Dissipative structures for an allosteric model. Application to glycolytic oscillations. Biophys J 12:1302–1315
Grayson WL, Zhao F, Izadpanah R, Bunnell B, Ma T (2006) Effects of hypoxia on human mesenchymal stem cell expansion and plasticity in 3D constructs. J Cell Physiol 207:331–339
Gutierrez JM, Lewis NE (2015) Optimizing eukaryotic cell hosts for protein production through systems biotechnology and genome-scale modeling. Biotechnol J 10:939–949
Hadi M, Marashi SA (2014) Reconstruction of a generic metabolic network model of cancer cells. Mol BioSyst 10:3014–3021
Higgins J (1964) A chemical mechanism for oscillation of glycolytic intermediates in yeast cells. Proc Natl Acad Sci USA 51:989–994
Jerby L, Ruppin E (2012) Predicting drug targets and biomarkers of cancer via genome-scale metabolic modeling. Clin Cancer Res 18:5572–5584
Karr JR et al (2012) A whole-cell computational model predicts phenotype from genotype. Cell 150:389–401
King ZA, Lloyd CJ, Feist AM, Palsson BO (2015) Next-generation genome-scale models for metabolic engineering. Curr Opin Biotechnol 35:23–29
Nishijima M, Kuge O, Akamatsu Y (1986) Phosphatidylserine biosynthesis in cultured Chinese hamster ovary cells. I. Inhibition of de novo phosphatidylserine biosynthesis by exogenous phosphatidylserine and its efficient incorporation. J Biol Chem 261:5784–5789
O’Brien EJ, Monk JM, Palsson BO (2015) Using genome-scale models to predict biological capabilities. Cell 161:971–987
Orth JD, Thiele I, Palsson BØ (2010) What is flux balance analysis? Nat Biotechnol 28:245–248
Pattappa G, Heywood HK, de Bruijn JD, Lee DA (2011) The metabolism of human mesenchymal stem cells during proliferation and differentiation. J Cell Physiol 226:2562–2570
Pattappa G, Thorpe SD, Jegard NC, Heywood HK, de Bruijn JD, Lee DA (2013) Continuous and uninterrupted oxygen tension influences the colony formation and oxidative metabolism of human mesenchymal stem cells. Tissue Eng Part C 19:68–79
Poolman MG, Venkatesh KV, Pidcock MK, Fell DA (2004) A method for the determination of flux in elementary modes, and its application to Lactobacillus rhamnosus. Biotechnol Bioeng 88:601–612
Read EK, Bradley SA, Smitka TA, Agarabi CD, Lute SC, Brorson KA (2013) Fermentanomics informed amino acid supplementation of an antibody producing mammalian cell culture. Biotechnol Prog 29:745–753
Sá JV, Kleiderman S, Brito C, Sonnewald U, Leist M, Teixeira AP, Alves PM (2017) Quantification of metabolic rearrangements during neural stem cells differentiation into astrocytes by metabolic flux analysis. Neurochem Res 42:244–253
Saha R, Chowdhury A, Maranas CD (2014) Recent advances in the reconstruction of metabolic models and integration of omics data. Curr Opin Biotechnol 29:39–45
Sart S, Agathos SN, Li Y (2014) Process engineering of stem cell metabolism for large scale expansion and differentiation in bioreactors. Biochem Eng J 84:74–82
Shields DJ, Lehner R, Agellon LB, Vance DE (2003) Membrane topography of human phosphatidylethanolamine N-methyltransferase. J Biol Chem 278:2956–2962
Shlomi T, Cabili MN, Ruppin E (2009) Predicting metabolic biomarkers of human inborn errors of metabolism. Mol Syst Biol 5:263
Simeonidis E, Price ND (2015) Genome-scale modeling for metabolic engineering. J Ind Microbiol Biotechnol 42:327–338
Thiele I, Price ND, Vo TD, Palsson BØ (2005) Candidate metabolic network states in human mitochondria: impact of diabetes, ischemia, and diet. J Biol Chem 280:11683–11695
Varma A, Palsson BØ (1993) Metabolic capabilities of Escherichia coli II. Optimal growth patterns. J Theor Biol 165:503–522
Vozza A, Parisi G, De Leonardis F, Lasorsa FM, Castegna A, Amorese D, Marmo R, Calcagnile VM, Palmieri L, Ricquier D, Paradies E, Scarcia P, Palmieri F, Bouillaud F, Fiermonte G (2014) UCP2 transports C4 metabolites out of mitochondria, regulating glucose and glutamine oxidation. Proc Natl Acad Sci USA 111:960–965
Wanet A, Arnould T, Najimi M, Renard P (2015) Connecting mitochondria, metabolism, and stem cell fate. Stem Cells Dev 24:1957–1971
Wiback SJ, Palsson BØ (2002) Extreme pathway analysis of human red blood cell metabolism. Biophys J 83:808–818
Yang H, Roth CM, Ierapetritou MG (2009) A rational design approach for amino acid supplementation in hepatocyte culture. Biotechnol Bioeng 103:1176–1191
Yazdani SO, Hafizi M, Zali AR, Atashi A, Ashrafi F, Seddighi AS, Soleimani M (2013) Safety and possible outcome assessment of autologous Schwann cell and bone marrow mesenchymal stromal cell co-transplantation for treatment of patients with chronic spinal cord injury. Cytotherapy 15:782–791
Yizhak K, Gabay O, Cohen H, Ruppin E (2013) Model-based identification of drug targets that revert disrupted metabolism and its application to ageing. Nat Commun 4:2632
Zhao F, Pathi P, Grayson W, Xing Q, Locke BR, Ma T (2005) Effects of oxygen transport on 3-D human mesenchymal stem cell metabolic activity in perfusion and static cultures: experiments and mathematical model. Biotechnol Prog 21:1269–1280
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We would like to acknowledge the financial support of University of Tehran for this research under grant number 28791/1/2.
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Fouladiha, H., Marashi, SA., Shokrgozar, M.A. et al. Applications of a metabolic network model of mesenchymal stem cells for controlling cell proliferation and differentiation. Cytotechnology 70, 331–338 (2018). https://doi.org/10.1007/s10616-017-0148-6
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DOI: https://doi.org/10.1007/s10616-017-0148-6