scholarly journals Current Status and Future Strategies to Increase Secondary Metabolite Production from Cyanobacteria

2020 ◽  
Vol 8 (12) ◽  
pp. 1849
Author(s):  
Yujin Jeong ◽  
Sang-Hyeok Cho ◽  
Hookeun Lee ◽  
Hyung-Kyoon Choi ◽  
Dong-Myung Kim ◽  
...  
Keyword(s):  
Metabolic Engineering ◽  
Systems Biology ◽  
Secondary Metabolites ◽  
Regulatory Networks ◽  
Carbon Fixation ◽  
Industrial Applications ◽  
Current Status ◽  
Enhanced Production ◽  
Biochemical Production ◽  
Genome Scale

Cyanobacteria, given their ability to produce various secondary metabolites utilizing solar energy and carbon dioxide, are a potential platform for sustainable production of biochemicals. Until now, conventional metabolic engineering approaches have been applied to various cyanobacterial species for enhanced production of industrially valued compounds, including secondary metabolites and non-natural biochemicals. However, the shortage of understanding of cyanobacterial metabolic and regulatory networks for atmospheric carbon fixation to biochemical production and the lack of available engineering tools limit the potential of cyanobacteria for industrial applications. Recently, to overcome the limitations, synthetic biology tools and systems biology approaches such as genome-scale modeling based on diverse omics data have been applied to cyanobacteria. This review covers the synthetic and systems biology approaches for advanced metabolic engineering of cyanobacteria.

scholarly journals Metabolic engineering with systems biology tools to optimize production of prokaryotic secondary metabolites

2016 ◽  
Vol 33 (8) ◽  
pp. 933-941 ◽  
Author(s):  
Hyun Uk Kim ◽  
Pep Charusanti ◽  
Sang Yup Lee ◽  
Tilmann Weber
Keyword(s):  
Metabolic Engineering ◽  
Systems Biology ◽  
Secondary Metabolites ◽  
Current Status ◽  
Optimal Production

This Highlight examines current status of metabolic engineering and systems biology tools deployed for the optimal production of prokaryotic secondary metabolites.

scholarly journals Genome-Scale Metabolic Model of Caldicellulosiruptor bescii Reveals Optimal Metabolic Engineering Strategies for Bio-based Chemical Production

mSystems ◽  
2021 ◽  
Author(s):  
Ke Zhang ◽  
Weishu Zhao ◽  
Dmitry A. Rodionov ◽  
Gabriel M. Rubinstein ◽  
Diep N. Nguyen ◽  
...  
Keyword(s):  
Metabolic Engineering ◽  
High Temperatures ◽  
Plant Biomass ◽  
Metabolic Model ◽  
Industrial Applications ◽  
Cellulolytic Bacterium ◽  
Chemical Production ◽  
Content Type ◽  
Caldicellulosiruptor Bescii ◽  
Genome Scale

The extremely thermophilic cellulolytic bacterium, Caldicellulosiruptor bescii , degrades plant biomass at high temperatures without any pretreatments and can serve as a strategic platform for industrial applications. The metabolic engineering of C. bescii , however, faces potential bottlenecks in bio-based chemical productions.

scholarly journals Omics-Driven Biotechnology for Industrial Applications

2021 ◽  
Vol 9 ◽  
Author(s):  
Bashar Amer ◽  
Edward E. K. Baidoo
Keyword(s):  
Metabolic Engineering ◽  
Systems Biology ◽  
Synthetic Biology ◽  
Metabolic Networks ◽  
Industrial Applications ◽  
Omics Technologies ◽  
Food Biotechnology ◽  
Food And Agriculture ◽  
Pros And Cons ◽  
The Impact

Biomanufacturing is a key component of biotechnology that uses biological systems to produce bioproducts of commercial relevance, which are of great interest to the energy, material, pharmaceutical, food, and agriculture industries. Biotechnology-based approaches, such as synthetic biology and metabolic engineering are heavily reliant on “omics” driven systems biology to characterize and understand metabolic networks. Knowledge gained from systems biology experiments aid the development of synthetic biology tools and the advancement of metabolic engineering studies toward establishing robust industrial biomanufacturing platforms. In this review, we discuss recent advances in “omics” technologies, compare the pros and cons of the different “omics” technologies, and discuss the necessary requirements for carrying out multi-omics experiments. We highlight the influence of “omics” technologies on the production of biofuels and bioproducts by metabolic engineering. Finally, we discuss the application of “omics” technologies to agricultural and food biotechnology, and review the impact of “omics” on current COVID-19 research.

scholarly journals Bioproduction of Isoprenoids and Other Secondary Metabolites Using Methanotrophic Bacteria as an Alternative Microbial Cell Factory Option: Current Stage and Future Aspects

Catalysts ◽  
2019 ◽  
Vol 9 (11) ◽  
pp. 883 ◽  
Author(s):  
Young Chan Jeon ◽  
Anh Duc Nguyen ◽  
Eun Yeol Lee
Keyword(s):  
Metabolic Engineering ◽  
Secondary Metabolites ◽  
Value Added ◽  
Industrial Applications ◽  
Cell Factory ◽  
Methanotrophic Bacteria ◽  
Microbial Cell Factory ◽  
Future Outlook ◽  
Metabolites Production ◽  
Current Stage

Methane is a promising carbon feedstock for industrial biomanufacturing because of its low price and high abundance. Recent advances in metabolic engineering and systems biology in methanotrophs have made it possible to produce a variety of value-added compounds from methane, including secondary metabolites. Isoprenoids are one of the largest family of secondary metabolites and have many useful industrial applications. In this review, we highlight the current efforts invested to methanotrophs for the production of isoprenoids and other secondary metabolites, including riboflavin and ectoine. The future outlook for improving secondary metabolites production (especially of isoprenoids) using metabolic engineering of methanotrophs is also discussed.

Systems Biology, Genome-Scale Models, and Metabolic Engineering

2009 ◽  
Author(s):  
Markus Herrgård ◽  
Jin Kim ◽  
Sang Lee ◽  
Bernhard Ø. Palsson ◽  
Hyun Uk Kim ◽  
...  
Keyword(s):  
Metabolic Engineering ◽  
Systems Biology ◽  
Scale Models ◽  
Genome Scale

scholarly journals Enhanced Production of Photosynthetic Pigments and Various Metabolites and Lipids in the Cyanobacteria Synechocystis sp. PCC 7338 Culture in the Presence of Exogenous Glucose

Biomolecules ◽  
2021 ◽  
Vol 11 (2) ◽  
pp. 214
Author(s):  
YuJin Noh ◽  
Hwanhui Lee ◽  
Myeongsun Kim ◽  
Seong-Joo Hong ◽  
Hookeun Lee ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Cell Growth ◽  
Photosynthetic Pigments ◽  
Industrial Applications ◽  
Gas Chromatography Mass Spectrometry ◽  
Enhanced Production ◽  
Exogenous Glucose ◽  
Nanoelectrospray Ionization ◽  
Lipid Species ◽  
Synechocystis Sp

Synechocystis strains are cyanobacteria that can produce useful biomaterials for biofuel and pharmaceutical resources. In this study, the effects of exogenous glucose (5-mM) on cell growth, photosynthetic pigments, metabolites, and lipids in Synechocystis sp. PCC 7338 (referred to as Synechocystis 7338) were investigated. Exogenous glucose increased cell growth on days 9 and 18. The highest production (mg/L) of chlorophyll a (34.66), phycocyanin (84.94), allophycocyanin (34.28), and phycoerythrin (6.90) was observed on day 18 in Synechocystis 7338 culture under 5-mM glucose. Alterations in metabolic and lipidomic profiles under 5-mM glucose were investigated using gas chromatography-mass spectrometry (MS) and nanoelectrospray ionization-MS. The highest production (relative intensity/L) of aspartic acid, glutamic acid, glycerol-3-phosphate, linolenic acid, monogalactosyldiacylglycerol (MGDG) 16:0/18:1, MGDG 16:0/20:2, MGDG 18:1/18:2, neophytadiene, oleic acid, phosphatidylglycerol (PG) 16:0/16:0, and PG 16:0/17:2 was achieved on day 9. The highest production of pyroglutamic acid and sucrose was observed on day 18. We suggest that the addition of exogenous glucose to Synechocystis 7338 culture could be an efficient strategy for improving growth of cells and production of photosynthetic pigments, metabolites, and intact lipid species for industrial applications.

scholarly journals Revealing the Metabolic Alterations during Biofilm Development of Burkholderia cenocepacia Based on Genome-Scale Metabolic Modeling

Metabolites ◽  
2021 ◽  
Vol 11 (4) ◽  
pp. 221
Author(s):  
Ozlem Altay ◽  
Cheng Zhang ◽  
Hasan Turkez ◽  
Jens Nielsen ◽  
Mathias Uhlén ◽  
...  
Keyword(s):  
Systems Biology ◽  
Alternative Pathway ◽  
Growth Conditions ◽  
Pentose Phosphate ◽  
Burkholderia Cenocepacia ◽  
Bacterial Cells ◽  
Metabolic Remodeling ◽  
Transcriptomics Data ◽  
Biofilm Development ◽  
Genome Scale

Burkholderia cenocepacia is among the important pathogens isolated from cystic fibrosis (CF) patients. It has attracted considerable attention because of its capacity to evade host immune defenses during chronic infection. Advances in systems biology methodologies have led to the emergence of methods that integrate experimental transcriptomics data and genome-scale metabolic models (GEMs). Here, we integrated transcriptomics data of bacterial cells grown on exponential and biofilm conditions into a manually curated GEM of B. cenocepacia. We observed substantial differences in pathway response to different growth conditions and alternative pathway susceptibility to extracellular nutrient availability. For instance, we found that blockage of the reactions was vital through the lipid biosynthesis pathways in the exponential phase and the absence of microenvironmental lysine and tryptophan are essential for survival. During biofilm development, bacteria mostly had conserved lipid metabolism but altered pathway activities associated with several amino acids and pentose phosphate pathways. Furthermore, conversion of serine to pyruvate and 2,5-dioxopentanoate synthesis are also identified as potential targets for metabolic remodeling during biofilm development. Altogether, our integrative systems biology analysis revealed the interactions between the bacteria and its microenvironment and enabled the discovery of antimicrobial targets for biofilm-related diseases.

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