2018
DOI: 10.1186/s12918-018-0542-5
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Genome-scale model-driven strain design for dicarboxylic acid production in Yarrowia lipolytica

Abstract: BackgroundRecently, there have been several attempts to produce long-chain dicarboxylic acids (DCAs) in various microbial hosts. Of these, Yarrowia lipolytica has great potential due to its oleaginous characteristics and unique ability to utilize hydrophobic substrates. However, Y. lipolytica should be further engineered to make it more competitive: the current approaches are mostly intuitive and cumbersome, thus limiting its industrial application.ResultsIn this study, we proposed model-guided metabolic engin… Show more

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Cited by 77 publications
(54 citation statements)
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References 60 publications
(58 reference statements)
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“…In addition, systems biology elaboration of metabolomics data has contributed a mathematical tool to identify three metabolic phases during routine storage, 25 which can be used to test and predict RBC storability in new storage additives in silico . 26 While the clinical relevance of the metabolomics studies of RBC storage is still a matter of debate, metabolomics studies in animal models and preliminary evidence in humans suggest that the severity of the metabolic lesion does indeed correlate with hemolysis in vitro 27,28 and post-transfusion recovery, 15,2931 the two gold standards for the determination of RBC storage quality according to Food and Drug Administration standards. 32 …”
Section: Introductionmentioning
confidence: 99%
“…In addition, systems biology elaboration of metabolomics data has contributed a mathematical tool to identify three metabolic phases during routine storage, 25 which can be used to test and predict RBC storability in new storage additives in silico . 26 While the clinical relevance of the metabolomics studies of RBC storage is still a matter of debate, metabolomics studies in animal models and preliminary evidence in humans suggest that the severity of the metabolic lesion does indeed correlate with hemolysis in vitro 27,28 and post-transfusion recovery, 15,2931 the two gold standards for the determination of RBC storage quality according to Food and Drug Administration standards. 32 …”
Section: Introductionmentioning
confidence: 99%
“…Beyond popular applications, such as metabolic flux prediction with flux balance analysis and prediction of the gene essentiality, GSMNs have been used in numerous applications (38) , e.g. chemicals and materials production (39)(40)(41)(42) , drug targeting (43,44) , human metabolism, disease understanding (45,46) and, multi-organism interaction modeling (47,48) . MNXref is now used within tools for testing GSMNs such as MEMOTE (49) , and has been proposed as a reference for minimal standard content for metabolic network reconstruction (50) .…”
Section: Discussionmentioning
confidence: 99%
“…A GEM of Yarrowia Y. lipolytica , considered as a model for oleaginous organism [32,2] was chosen as a reference scaffold. There are 5 published models for Y. lipolytica iNL895 [37], iYL619 [67], iMK735 [68], iYALI4 [50], iYLI647 [69]. Y. lipolytica iNL895 model [37] was used as a scaffold because it contains the most reactions and genes and was also constructed based on the Saccharomyces cerevisiae model, iIN800 [70] which was specialized for lipid synthesis.…”
Section: Construction Of the Draft Modelmentioning
confidence: 99%