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Wu Z, Liang X, Li M, Ma M, Zheng Q, Li D, An T, Wang G. Advances in the optimization of central carbon metabolism in metabolic engineering. Microb Cell Fact 2023; 22:76. [PMID: 37085866 PMCID: PMC10122336 DOI: 10.1186/s12934-023-02090-6] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2023] [Accepted: 04/10/2023] [Indexed: 04/23/2023] Open
Abstract
Central carbon metabolism (CCM), including glycolysis, tricarboxylic acid cycle and the pentose phosphate pathway, is the most fundamental metabolic process in the activities of living organisms that maintains normal cellular growth. CCM has been widely used in microbial metabolic engineering in recent years due to its unique regulatory role in cellular metabolism. Using yeast and Escherichia coli as the representative organisms, we summarized the metabolic engineering strategies on the optimization of CCM in eukaryotic and prokaryotic microbial chassis, such as the introduction of heterologous CCM metabolic pathways and the optimization of key enzymes or regulatory factors, to lay the groundwork for the future use of CCM optimization in metabolic engineering. Furthermore, the bottlenecks in the application of CCM optimization in metabolic engineering and future application prospects are summarized.
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Affiliation(s)
- Zhenke Wu
- Featured Laboratory for Biosynthesis and Target Discovery of Active Components of Traditional Chinese Medicine, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China
- Yantai Key Laboratory of Pharmacology of Traditional Chinese Medicine in Tumor Metabolism, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China
| | - Xiqin Liang
- Featured Laboratory for Biosynthesis and Target Discovery of Active Components of Traditional Chinese Medicine, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China
- Yantai Key Laboratory of Pharmacology of Traditional Chinese Medicine in Tumor Metabolism, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China
| | - Mingkai Li
- Featured Laboratory for Biosynthesis and Target Discovery of Active Components of Traditional Chinese Medicine, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China
- Yantai Key Laboratory of Pharmacology of Traditional Chinese Medicine in Tumor Metabolism, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China
| | - Mengyu Ma
- Featured Laboratory for Biosynthesis and Target Discovery of Active Components of Traditional Chinese Medicine, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China
- Yantai Key Laboratory of Pharmacology of Traditional Chinese Medicine in Tumor Metabolism, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China
| | - Qiusheng Zheng
- Featured Laboratory for Biosynthesis and Target Discovery of Active Components of Traditional Chinese Medicine, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China
- Yantai Key Laboratory of Pharmacology of Traditional Chinese Medicine in Tumor Metabolism, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China
| | - Defang Li
- Featured Laboratory for Biosynthesis and Target Discovery of Active Components of Traditional Chinese Medicine, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China.
- Yantai Key Laboratory of Pharmacology of Traditional Chinese Medicine in Tumor Metabolism, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China.
| | - Tianyue An
- Featured Laboratory for Biosynthesis and Target Discovery of Active Components of Traditional Chinese Medicine, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China.
- Yantai Key Laboratory of Pharmacology of Traditional Chinese Medicine in Tumor Metabolism, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China.
| | - Guoli Wang
- Featured Laboratory for Biosynthesis and Target Discovery of Active Components of Traditional Chinese Medicine, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China.
- Yantai Key Laboratory of Pharmacology of Traditional Chinese Medicine in Tumor Metabolism, School of Integrated Traditional Chinese and Western Medicine, Binzhou Medical University, Yantai, 264003, China.
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Pleissner D, Dietz D, van Duuren JBJH, Wittmann C, Yang X, Lin CSK, Venus J. Biotechnological Production of Organic Acids from Renewable Resources. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2019; 166:373-410. [PMID: 28265703 DOI: 10.1007/10_2016_73] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Abstract
Biotechnological processes are promising alternatives to petrochemical routes for overcoming the challenges of resource depletion in the future in a sustainable way. The strategies of white biotechnology allow the utilization of inexpensive and renewable resources for the production of a broad range of bio-based compounds. Renewable resources, such as agricultural residues or residues from food production, are produced in large amounts have been shown to be promising carbon and/or nitrogen sources. This chapter focuses on the biotechnological production of lactic acid, acrylic acid, succinic acid, muconic acid, and lactobionic acid from renewable residues, these products being used as monomers for bio-based material and/or as food supplements. These five acids have high economic values and the potential to overcome the "valley of death" between laboratory/pilot scale and commercial/industrial scale. This chapter also provides an overview of the production strategies, including microbial strain development, used to convert renewable resources into value-added products.
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Affiliation(s)
- Daniel Pleissner
- Department of Bioengineering, Leibniz Institute for Agricultural Engineering and Bioeconomy Potsdam (ATB), Max-Eyth-Allee 100, 14469, Potsdam, Germany
| | - Donna Dietz
- Department of Bioengineering, Leibniz Institute for Agricultural Engineering and Bioeconomy Potsdam (ATB), Max-Eyth-Allee 100, 14469, Potsdam, Germany
| | | | - Christoph Wittmann
- Institute of Systems Biotechnology, Saarland University, Saarbrücken, Germany
| | - Xiaofeng Yang
- School of Energy and Environment, City University of Hong Kong, Tat Chee Avenue, Kowloon, Hong Kong
| | - Carol Sze Ki Lin
- School of Energy and Environment, City University of Hong Kong, Tat Chee Avenue, Kowloon, Hong Kong
| | - Joachim Venus
- Department of Bioengineering, Leibniz Institute for Agricultural Engineering and Bioeconomy Potsdam (ATB), Max-Eyth-Allee 100, 14469, Potsdam, Germany.
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Jessop‐Fabre MM, Dahlin J, Biron MB, Stovicek V, Ebert BE, Blank LM, Budin I, Keasling JD, Borodina I. The Transcriptome and Flux Profiling of Crabtree‐Negative Hydroxy Acid‐Producing Strains ofSaccharomyces cerevisiaeReveals Changes in the Central Carbon Metabolism. Biotechnol J 2019; 14:e1900013. [DOI: 10.1002/biot.201900013] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2019] [Revised: 03/21/2019] [Indexed: 01/28/2023]
Affiliation(s)
- Mathew M. Jessop‐Fabre
- The Novo Nordisk Foundation for BiosustainabilityTechnical University of Denmark Building 220 2800 Kongens Lyngby Denmark
| | - Jonathan Dahlin
- The Novo Nordisk Foundation for BiosustainabilityTechnical University of Denmark Building 220 2800 Kongens Lyngby Denmark
| | - Mathias B. Biron
- The Novo Nordisk Foundation for BiosustainabilityTechnical University of Denmark Building 220 2800 Kongens Lyngby Denmark
| | - Vratislav Stovicek
- The Novo Nordisk Foundation for BiosustainabilityTechnical University of Denmark Building 220 2800 Kongens Lyngby Denmark
| | - Birgitta E. Ebert
- Institute of Applied MicrobiologyRWTH Aachen University Worringer Weg 1 52074 Aachen Germany
| | - Lars M. Blank
- Institute of Applied MicrobiologyRWTH Aachen University Worringer Weg 1 52074 Aachen Germany
| | - Itay Budin
- Department of Chemical and Biomolecular EngineeringUniversity of California Berkeley CA 94720 USA
- Department of BioengineeringUniversity of California Berkeley CA 94720 USA
| | - Jay D. Keasling
- The Novo Nordisk Foundation for BiosustainabilityTechnical University of Denmark Building 220 2800 Kongens Lyngby Denmark
- Joint BioEnergy Institute Emeryville CA 94608 USA
- Biological Systems & Engineering DivisionLawrence Berkeley National Laboratory Berkeley CA 94720 USA
- Department of Chemical and Biomolecular EngineeringUniversity of California Berkeley CA 94720 USA
- Department of BioengineeringUniversity of California Berkeley CA 94720 USA
| | - Irina Borodina
- The Novo Nordisk Foundation for BiosustainabilityTechnical University of Denmark Building 220 2800 Kongens Lyngby Denmark
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Ke W, Chang S, Chen X, Luo S, Jiang S, Yang P, Wu X, Zheng Z. Metabolic control analysis of L-lactate synthesis pathway in Rhizopus oryzae As 3.2686. Bioprocess Biosyst Eng 2015; 38:2189-99. [PMID: 26288952 DOI: 10.1007/s00449-015-1458-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2015] [Accepted: 08/08/2015] [Indexed: 10/23/2022]
Abstract
The relationship between the metabolic flux and the activities of the pyruvate branching enzymes of Rhizopus oryzae As 3.2686 during L-lactate fermentation was investigated using the perturbation method of aeration. The control coefficients for five enzymes, pyruvate dehydrogenase (PDH), pyruvate carboxylase (PC), pyruvate decarboxylase (PDC), lactate dehydrogenase (LDH), and alcohol dehydrogenase (ADH), were calculated. Our results indicated significant correlations between PDH and PC, PDC and LDH, PDC and ADH, LDH and ADH, and PDC and PC. It also appeared that PDH, PC, and LDH strongly controlled the L-lactate flux; PDH and ADH strongly controlled the ethanol flux; while PDH and PC strongly controlled the acetyl coenzyme A flux and the oxaloacetate flux. Further, the flux control coefficient curves indicated that the control of the system gradually transferred from PDC to PC during the steady state. Therefore, PC was the key rate-limiting enzyme that controls the flux distribution.
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Affiliation(s)
- Wei Ke
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Shu Chang
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Xiaoju Chen
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Shuizhong Luo
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China.,Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Shaotong Jiang
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China.,Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Peizhou Yang
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China.,Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Xuefeng Wu
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China.,Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China
| | - Zhi Zheng
- School of Biotechnology and Food Engineering, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China. .,Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, 193 Tunxi Road, Hefei, 230009, People's Republic of China.
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Microorganisms for the Production of Lactic Acid and Organic Lactates. MICROORGANISMS IN BIOREFINERIES 2015. [DOI: 10.1007/978-3-662-45209-7_9] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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Jeong BY, Wittmann C, Kato T, Park EY. Comparative metabolic flux analysis of an Ashbya gossypii wild type strain and a high riboflavin-producing mutant strain. J Biosci Bioeng 2014; 119:101-6. [PMID: 25128926 DOI: 10.1016/j.jbiosc.2014.06.014] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2014] [Revised: 06/18/2014] [Accepted: 06/19/2014] [Indexed: 11/18/2022]
Abstract
In the present study, we analyzed the central metabolic pathway of an Ashbya gossypii wild type strain and a riboflavin over-producing mutant strain developed in a previous study in order to characterize the riboflavin over-production pathway. (13)C-Metabolic flux analysis ((13)C-MFA) was carried out in both strains, and the resulting data were fit to a steady-state flux isotopomer model using OpenFLUX. Flux to pentose-5-phosphate (P5P) via the pentose phosphate pathway (PPP) was 9% higher in the mutant strain compared to the wild type strain. The flux from purine synthesis to riboflavin in the mutant strain was 1.6%, while that of the wild type strain was only 0.1%, a 16-fold difference. In addition, the flux from the cytoplasmic pyruvate pool to the extracellular metabolites, pyruvate, lactate, and alanine, was 2-fold higher in the mutant strain compared to the wild type strain. This result demonstrates that increased guanosine triphosphate (GTP) flux through the PPP and purine synthesis pathway (PSP) increased riboflavin production in the mutant strain. The present study provides the first insight into metabolic flux through the central carbon pathway in A. gossypii and sets the foundation for development of a quantitative and functional model of the A. gossypii metabolic network.
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Affiliation(s)
- Bo-Young Jeong
- Laboratory of Biotechnology, Integrated Bioscience Section, Graduate School of Science and Technology, Shizuoka University, 836 Ohya Suruga-ku, Shizuoka 422-8529, Japan.
| | - Christoph Wittmann
- Institute of Biochemical Engineering, Braunschweig University of Technology, Gauss Street 17, Braunschweig 38106, Germany.
| | - Tatsuya Kato
- Research Institute of Green Science and Technology, Shizuoka University, 836 Ohya Suruga-ku, Shizuoka 422-8529, Japan.
| | - Enoch Y Park
- Laboratory of Biotechnology, Integrated Bioscience Section, Graduate School of Science and Technology, Shizuoka University, 836 Ohya Suruga-ku, Shizuoka 422-8529, Japan; Research Institute of Green Science and Technology, Shizuoka University, 836 Ohya Suruga-ku, Shizuoka 422-8529, Japan.
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