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OpenFLUX: efficient modelling software for 13C-based metabolic flux analysis [PDF]
Microbial Cell Factories, 2009 Abstract Background The quantitative analysis of metabolic fluxes, i.e., in vivo activities of intracellular enzymes and pathways, provides key information on biological systems in systems biology and metabolic engineering. It is based on a comprehensive approach combining (i) tracer cultivation on 13C substrates, (ii)
Quek, Lake-Ee +3 more
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New Biotechnology, 2019 Metabolic flux analysis based on 13C-derived constraints has proved to be a powerful method for quantitative physiological characterisation of one of the most extensively used microbial cell factory platforms, Pichia pastoris (syn. Komagataella spp.). Nonetheless, the reduced number of carbon atoms and the symmetry of the glycerol molecule has hampered
Màrius Tomàs-Gamisans +4 more
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13C-based metabolic flux analysis
Nature Protocols, 2009 Stable isotope, and in particular (13)C-based flux analysis, is the exclusive approach to experimentally quantify the integrated responses of metabolic networks. Here we describe a protocol that is based on growing microbes on (13)C-labeled glucose and subsequent gas chromatography mass spectrometric detection of (13)C-patterns in protein-bound amino ...
Zamboni, Nicola +3 more
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IFAC-PapersOnLine, 2016 Abstract: Streptomyces lividans is an interesting host for the production of heterologous proteins. Expression of these foreign proteins often results in a metabolic burden leading to unsatisfactory yields. In this work, metabolic fluxes in Streptomyces lividans producing thermostable cellulase A are quantified.
Jeroen Bouvin +4 more
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Validation-based model selection for 13C metabolic flux analysis with uncertain measurement errors.
PLoS Computational Biology, 2022 Accurate measurements of metabolic fluxes in living cells are central to metabolism research and metabolic engineering. The gold standard method is model-based metabolic flux analysis (MFA), where fluxes are estimated indirectly from mass isotopomer data
Nicolas Sundqvist +5 more
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Analysis of metabolic flux in felid spermatozoa using metabolomics and 13C-based fluxomics†
Biology of Reproduction, 2019 Spermatozoa from three feline species-the domestic cat (Felis catus), the cheetah (Acinonyx jubatus), and the clouded leopard (Neofelis nebulosa)-were analyzed using metabolomic profiling and 13C-based fluxomics to address questions raised regarding their energy metabolism.
Halli S Weiner +2 more
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Microbial Cell Factories, 2022 Background Cyanobacteria receive huge interest as green catalysts. While exploiting energy from sunlight, they co-utilize sugar and CO2. This photomixotrophic mode enables fast growth and high cell densities, opening perspectives for sustainable ...
Dennis Schulze +9 more
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Frontiers in Microbiology, 2019 In the past two decades, 13C metabolic flux analysis (13C-MFA) has matured into a powerful and widely used scientific tool in metabolic engineering and systems biology.
Jungik Choi, Maciek R. Antoniewicz
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Frontiers in Plant Science, 2023 The estimation of metabolic fluxes in photosynthetic organisms represents an important challenge that has gained interest over the last decade with the development of 13C-Metabolic Flux Analysis at isotopically non-stationary steady-state.
Younès Dellero +12 more
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Frontiers in Plant Science, 2014 The use of large-scale or genome-scale metabolic reconstructions for modeling and simulation of plant metabolism and integration of those models with large-scale omics and experimental flux data is becoming increasingly important in plant metabolic ...
Jordan eHay +5 more
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