Literature DB >> 25613286

Methods and advances in metabolic flux analysis: a mini-review.

Maciek R Antoniewicz1.   

Abstract

Metabolic flux analysis (MFA) is one of the pillars of metabolic engineering. Over the past three decades, it has been widely used to quantify intracellular metabolic fluxes in both native (wild type) and engineered biological systems. Through MFA, changes in metabolic pathway fluxes are quantified that result from genetic and/or environmental interventions. This information, in turn, provides insights into the regulation of metabolic pathways and may suggest new targets for further metabolic engineering of the strains. In this mini-review, we discuss and classify the various methods of MFA that have been developed, which include stoichiometric MFA, (13)C metabolic flux analysis, isotopic non-stationary (13)C metabolic flux analysis, dynamic metabolic flux analysis, and (13)C dynamic metabolic flux analysis. For each method, we discuss key advantages and limitations and conclude by highlighting important recent advances in flux analysis approaches.

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Year:  2015        PMID: 25613286     DOI: 10.1007/s10295-015-1585-x

Source DB:  PubMed          Journal:  J Ind Microbiol Biotechnol        ISSN: 1367-5435            Impact factor:   3.346


  93 in total

1.  Computational tools for isotopically instationary 13C labeling experiments under metabolic steady state conditions.

Authors:  Katharina Nöh; Aljoscha Wahl; Wolfgang Wiechert
Journal:  Metab Eng       Date:  2006-06-12       Impact factor: 9.783

2.  Elementary metabolite units (EMU): a novel framework for modeling isotopic distributions.

Authors:  Maciek R Antoniewicz; Joanne K Kelleher; Gregory Stephanopoulos
Journal:  Metab Eng       Date:  2006-09-17       Impact factor: 9.783

3.  Accurate assessment of amino acid mass isotopomer distributions for metabolic flux analysis.

Authors:  Maciek R Antoniewicz; Joanne K Kelleher; Gregory Stephanopoulos
Journal:  Anal Chem       Date:  2007-09-07       Impact factor: 6.986

Review 4.  Metabolic network flux analysis for engineering plant systems.

Authors:  Yair Shachar-Hill
Journal:  Curr Opin Biotechnol       Date:  2013-02-08       Impact factor: 9.740

Review 5.  Isotopically non-stationary metabolic flux analysis: complex yet highly informative.

Authors:  Wolfgang Wiechert; Katharina Nöh
Journal:  Curr Opin Biotechnol       Date:  2013-04-24       Impact factor: 9.740

6.  INCA: a computational platform for isotopically non-stationary metabolic flux analysis.

Authors:  Jamey D Young
Journal:  Bioinformatics       Date:  2014-01-11       Impact factor: 6.937

7.  Metabolic flux analysis in a nonstationary system: fed-batch fermentation of a high yielding strain of E. coli producing 1,3-propanediol.

Authors:  Maciek R Antoniewicz; David F Kraynie; Lisa A Laffend; Joanna González-Lergier; Joanne K Kelleher; Gregory Stephanopoulos
Journal:  Metab Eng       Date:  2007-02-23       Impact factor: 9.783

Review 8.  Metabolic flux rewiring in mammalian cell cultures.

Authors:  Jamey D Young
Journal:  Curr Opin Biotechnol       Date:  2013-05-28       Impact factor: 9.740

9.  13CFLUX2--high-performance software suite for (13)C-metabolic flux analysis.

Authors:  Michael Weitzel; Katharina Nöh; Tolga Dalman; Sebastian Niedenführ; Birgit Stute; Wolfgang Wiechert
Journal:  Bioinformatics       Date:  2012-10-30       Impact factor: 6.937

Review 10.  Elucidation of intrinsic biosynthesis yields using 13C-based metabolism analysis.

Authors:  Arul M Varman; Lian He; Le You; Whitney Hollinshead; Yinjie J Tang
Journal:  Microb Cell Fact       Date:  2014-03-19       Impact factor: 5.328

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  61 in total

1.  Editorial.

Authors:  Jens Nielsen; Ramon Gonzalez
Journal:  J Ind Microbiol Biotechnol       Date:  2015-03       Impact factor: 3.346

2.  Complete genome sequence, metabolic model construction and phenotypic characterization of Geobacillus LC300, an extremely thermophilic, fast growing, xylose-utilizing bacterium.

Authors:  Lauren T Cordova; Christopher P Long; Keerthi P Venkataramanan; Maciek R Antoniewicz
Journal:  Metab Eng       Date:  2015-09-21       Impact factor: 9.783

3.  Applications of a metabolic network model of mesenchymal stem cells for controlling cell proliferation and differentiation.

Authors:  Hamideh Fouladiha; Sayed-Amir Marashi; Mohammad Ali Shokrgozar; Mehdi Farokhi; Amir Atashi
Journal:  Cytotechnology       Date:  2017-10-04       Impact factor: 2.058

Review 4.  Mathematical modelling of microbes: metabolism, gene expression and growth.

Authors:  Hidde de Jong; Stefano Casagranda; Nils Giordano; Eugenio Cinquemani; Delphine Ropers; Johannes Geiselmann; Jean-Luc Gouzé
Journal:  J R Soc Interface       Date:  2017-11       Impact factor: 4.118

5.  Comprehensive analysis of glucose and xylose metabolism in Escherichia coli under aerobic and anaerobic conditions by 13C metabolic flux analysis.

Authors:  Jacqueline E Gonzalez; Christopher P Long; Maciek R Antoniewicz
Journal:  Metab Eng       Date:  2016-11-11       Impact factor: 9.783

6.  Metabolite Spectral Accuracy on Orbitraps.

Authors:  Xiaoyang Su; Wenyun Lu; Joshua D Rabinowitz
Journal:  Anal Chem       Date:  2017-05-18       Impact factor: 6.986

7.  Evidence for transketolase-like TKTL1 flux in CHO cells based on parallel labeling experiments and (13)C-metabolic flux analysis.

Authors:  Woo Suk Ahn; Scott B Crown; Maciek R Antoniewicz
Journal:  Metab Eng       Date:  2016-05-10       Impact factor: 9.783

Review 8.  Subcellular functions of proteins under fluorescence single-cell microscopy.

Authors:  Casey L Kohnhorst; Danielle L Schmitt; Anand Sundaram; Songon An
Journal:  Biochim Biophys Acta       Date:  2015-05-27

9.  13C metabolic flux analysis of microbial and mammalian systems is enhanced with GC-MS measurements of glycogen and RNA labeling.

Authors:  Christopher P Long; Jennifer Au; Jacqueline E Gonzalez; Maciek R Antoniewicz
Journal:  Metab Eng       Date:  2016-06-22       Impact factor: 9.783

10.  (13)C-metabolic flux analysis of co-cultures: A novel approach.

Authors:  Nikodimos A Gebreselassie; Maciek R Antoniewicz
Journal:  Metab Eng       Date:  2015-07-26       Impact factor: 9.783

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