Applications of stable isotope-based metabolomics and fluxomics toward synthetic biology of cyanobacteria
Abstract
Abstract Unique features of cyanobacteria (e.g., photosynthesis and nitrogen fixation) make them potential candidates for production of biofuels and other value‐added biochemicals. As prokaryotes, they can be readily engineered using synthetic and systems biology tools. Metabolic engineering of cyanobacteria for the synthesis of desired compounds requires in‐depth knowledge of central carbon and nitrogen metabolism, pathway fluxes, and their regulation. Metabolomics and fluxomics offer the comprehensive analysis of metabolism by directly characterizing the biochemical activities of cells. This information is acquired by measuring the abundance of key metabolites and their rates of interconversion, which can be achieved by labeling cells with stable isotopes, quantifying metabolite pool sizes and isotope incorporation by gas chromatography/liquid chromatography‐mass spectrometry GC/LC‐MS or nuclear magnetic resonance (NMR), and mathematical modeling to estimate in vivo metabolic fluxes. Herein, we review progress that has been made to adapt metabolomics and fluxomics tools to examine model cyanobacterial species. We summarize the application of metabolic flux analysis (MFA) strategies to identify metabolic bottlenecks that can be targeted to boost cell growth, improve stress tolerance, or enhance biochemical production in cyanobacteria. Despite the advances in metabolomics, fluxomics, and other synthetic and systems biology tools during the past years, further efforts are requiredmore »
- Publication Date:
- Research Org.:
- Vanderbilt Univ., Nashville, TN (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC)
- OSTI Identifier:
- 1803790
- Alternate Identifier(s):
- OSTI ID: 1577888
- Grant/Contract Number:
- SC0019404; DE‐SC0019404
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Wiley Interdisciplinary Reviews: Systems Biology and Medicine
- Additional Journal Information:
- Journal Volume: 12; Journal Issue: 3; Journal ID: ISSN 1939-5094
- Publisher:
- Wiley
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Research & experimental medicine; cyanobacteria; fluxomics; mass spectrometry; metabolic flux; metabolomics
Citation Formats
Babele, Piyoosh Kumar, and Young, Jamey D. Applications of stable isotope-based metabolomics and fluxomics toward synthetic biology of cyanobacteria. United States: N. p., 2019.
Web. doi:10.1002/wsbm.1472.
Babele, Piyoosh Kumar, & Young, Jamey D. Applications of stable isotope-based metabolomics and fluxomics toward synthetic biology of cyanobacteria. United States. https://doi.org/10.1002/wsbm.1472
Babele, Piyoosh Kumar, and Young, Jamey D. Mon .
"Applications of stable isotope-based metabolomics and fluxomics toward synthetic biology of cyanobacteria". United States. https://doi.org/10.1002/wsbm.1472. https://www.osti.gov/servlets/purl/1803790.
@article{osti_1803790,
title = {Applications of stable isotope-based metabolomics and fluxomics toward synthetic biology of cyanobacteria},
author = {Babele, Piyoosh Kumar and Young, Jamey D.},
abstractNote = {Abstract Unique features of cyanobacteria (e.g., photosynthesis and nitrogen fixation) make them potential candidates for production of biofuels and other value‐added biochemicals. As prokaryotes, they can be readily engineered using synthetic and systems biology tools. Metabolic engineering of cyanobacteria for the synthesis of desired compounds requires in‐depth knowledge of central carbon and nitrogen metabolism, pathway fluxes, and their regulation. Metabolomics and fluxomics offer the comprehensive analysis of metabolism by directly characterizing the biochemical activities of cells. This information is acquired by measuring the abundance of key metabolites and their rates of interconversion, which can be achieved by labeling cells with stable isotopes, quantifying metabolite pool sizes and isotope incorporation by gas chromatography/liquid chromatography‐mass spectrometry GC/LC‐MS or nuclear magnetic resonance (NMR), and mathematical modeling to estimate in vivo metabolic fluxes. Herein, we review progress that has been made to adapt metabolomics and fluxomics tools to examine model cyanobacterial species. We summarize the application of metabolic flux analysis (MFA) strategies to identify metabolic bottlenecks that can be targeted to boost cell growth, improve stress tolerance, or enhance biochemical production in cyanobacteria. Despite the advances in metabolomics, fluxomics, and other synthetic and systems biology tools during the past years, further efforts are required to increase our understanding of cyanobacterial metabolism in order to create efficient photosynthetic hosts for the production of value‐added compounds. This article is categorized under: Laboratory Methods and Technologies > Metabolomics Biological Mechanisms > Metabolism Analytical and Computational Methods > Analytical Methods},
doi = {10.1002/wsbm.1472},
journal = {Wiley Interdisciplinary Reviews: Systems Biology and Medicine},
number = 3,
volume = 12,
place = {United States},
year = {Mon Dec 09 00:00:00 EST 2019},
month = {Mon Dec 09 00:00:00 EST 2019}
}
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