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Zhang J, Zhao G, Bai W, Chen Y, Zhang Y, Li F, Wang M, Shen Y, Wang Y, Wang X, Li C. A Genomewide Evolution-Based CRISPR/Cas9 with Donor-Free (GEbCD) for Developing Robust and Productive Industrial Yeast. ACS Synth Biol 2024. [PMID: 39012160 DOI: 10.1021/acssynbio.4c00017] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/17/2024]
Abstract
Developing more robust and productive industrial yeast is crucial for high-efficiency biomanufacturing. However, the challenges posed by the long time required and the low abundance of mutations generated through genomewide evolutionary engineering hinder the development and optimization of desired hosts for industrial applications. To address these issues, we present a novel solution called the Genomewide Evolution-based CRISPR/Cas with Donor-free (GEbCD) system, in which nonhomologous-end-joining (NHEJ) repair can accelerate the acquisition of highly abundant yeast mutants. Together with modified rad52 of the DNA double-strand break repair in Saccharomyces cerevisiae, a hypermutation host was obtained with a 400-fold enhanced mutation ability. Under multiple environmental stresses the system could rapidly generate millions of mutants in a few rounds of iterative evolution. Using high-throughput screening, an industrial S. cerevisiae SISc-Δrad52-G4-72 (G4-72) was obtained that is strongly robust and has higher productivity. G4-72 grew stably and produced ethanol efficiently in multiple-stress environments, e.g. high temperature and high osmosis. In a pilot-scale fermentation with G4-72, the fermentation temperature was elevated by 8 °C and ethanol production was increased by 6.9% under the multiple stresses posed by the industrial fermentation substrate. Overall, the GEbCD system presents a powerful tool to rapidly generate abundant mutants and desired hosts, and offers a novel strategy for optimizing microbial chassis with regard to demands posed in industrial applications.
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Affiliation(s)
- Jinwei Zhang
- Nutrition & Health Research Institute, COFCO Corporation, Beijing 102209, China
- Key Laboratory of Medical Molecule Science and Pharmaceutics Engineering, Ministry of Industry and Information Technology, Institute of Biochemical Engineering, School of Chemistry and Chemical Engineering, Beijing Institute of Technology, Beijing 100081, China
- School of Life Science, Yan'an University, Yan'an, Shaanxi 716000, China
| | - Guomiao Zhao
- Nutrition & Health Research Institute, COFCO Corporation, Beijing 102209, China
| | - Wenxin Bai
- Nutrition & Health Research Institute, COFCO Corporation, Beijing 102209, China
- Key Laboratory of Medical Molecule Science and Pharmaceutics Engineering, Ministry of Industry and Information Technology, Institute of Biochemical Engineering, School of Chemistry and Chemical Engineering, Beijing Institute of Technology, Beijing 100081, China
| | - Ying Chen
- Guangdong Provincial Key Laboratory of Genome Read and Write, BGI Research, Shenzhen 518083, China
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yuan Zhang
- Nutrition & Health Research Institute, COFCO Corporation, Beijing 102209, China
| | - Fan Li
- Nutrition & Health Research Institute, COFCO Corporation, Beijing 102209, China
| | - Manyi Wang
- Nutrition & Health Research Institute, COFCO Corporation, Beijing 102209, China
| | - Yue Shen
- BGI Research, Changzhou 213299, China
- Guangdong Provincial Key Laboratory of Genome Read and Write, BGI Research, Shenzhen 518083, China
| | - Yun Wang
- BGI Research, Changzhou 213299, China
- Guangdong Provincial Key Laboratory of Genome Read and Write, BGI Research, Shenzhen 518083, China
| | - Xiaoyan Wang
- Nutrition & Health Research Institute, COFCO Corporation, Beijing 102209, China
| | - Chun Li
- Key Laboratory of Medical Molecule Science and Pharmaceutics Engineering, Ministry of Industry and Information Technology, Institute of Biochemical Engineering, School of Chemistry and Chemical Engineering, Beijing Institute of Technology, Beijing 100081, China
- Key Laboratory for Industrial Biocatalysis, Ministry of Education, Department of Chemical Engineering, Tsinghua University, Beijing 100084, China
- School of Life Science, Yan'an University, Yan'an, Shaanxi 716000, China
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2
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Li DX, Guo Q, Yang YX, Jiang SJ, Ji XJ, Ye C, Wang YT, Shi TQ. Recent Advances and Multiple Strategies of Monoterpenoid Overproduction in Saccharomyces cerevisiae and Yarrowia lipolytica. ACS Synth Biol 2024; 13:1647-1662. [PMID: 38860708 DOI: 10.1021/acssynbio.4c00297] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2024]
Abstract
Monoterpenoids are an important subclass of terpenoids that play important roles in the energy, cosmetics, pharmaceuticals, and fragrances fields. With the development of biotechnology, microbial synthesis of monoterpenoids has received great attention. Yeasts such Saccharomyces cerevisiae and Yarrowia lipolytica are emerging as potential hosts for monoterpenoids production because of unique advantages including rapid growth cycles, mature gene editing tools, and clear genetic background. Recently, advancements in metabolic engineering and fermentation engineering have significantly enhanced the accumulation of monoterpenoids in cell factories. First, this review introduces the biosynthetic pathway of monoterpenoids and comprehensively summarizes the latest production strategies, which encompass enhancing precursor flux, modulating the expression of rate-limited enzymes, suppressing competitive pathway flux, mitigating cytotoxicity, optimizing substrate utilization, and refining the fermentation process. Subsequently, this review introduces four representative monoterpenoids. Finally, we outline the future prospects for efficient construction cell factories tailored for the production of monoterpenoids and other terpenoids.
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Affiliation(s)
- Dong-Xun Li
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, 2 Xuelin Road, Qixia District, Nanjing 210023, People's Republic of China
| | - Qi Guo
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, 2 Xuelin Road, Qixia District, Nanjing 210023, People's Republic of China
| | - Yu-Xin Yang
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, 2 Xuelin Road, Qixia District, Nanjing 210023, People's Republic of China
| | - Shun-Jie Jiang
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, 2 Xuelin Road, Qixia District, Nanjing 210023, People's Republic of China
| | - Xiao-Jun Ji
- College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, No. 30 South Puzhu Road, Nanjing 211816, People's Republic of China
| | - Chao Ye
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, 2 Xuelin Road, Qixia District, Nanjing 210023, People's Republic of China
| | - Yue-Tong Wang
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, 2 Xuelin Road, Qixia District, Nanjing 210023, People's Republic of China
| | - Tian-Qiong Shi
- School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, 2 Xuelin Road, Qixia District, Nanjing 210023, People's Republic of China
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Oehlenschläger K, Schepp E, Stiefelmaier J, Holtmann D, Ulber R. Simultaneous fermentation and enzymatic biocatalysis-a useful process option? BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS 2024; 17:67. [PMID: 38796486 PMCID: PMC11128117 DOI: 10.1186/s13068-024-02519-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/16/2024] [Accepted: 05/16/2024] [Indexed: 05/28/2024]
Abstract
Biotransformation with enzymes and de novo syntheses with whole-cell biocatalysts each have specific advantages. These can be combined to achieve processes with optimal performance. A recent approach is to perform bioconversion processes and enzymatic catalysis simultaneously in one-pot. This is a well-established process in the biorefinery, where starchy or cellulosic material is degraded enzymatically and simultaneously used as substrate for microbial cultivations. This procedure leads to a number of advantages like saving in time but also in the needed equipment (e.g., reaction vessels). In addition, the inhibition or side-reaction of high sugar concentrations can be overcome by combining the processes. These benefits of coupling microbial conversion and enzymatic biotransformation can also be transferred to other processes for example in the sector of biofuel production or in the food industry. However, finding a compromise between the different requirements of the two processes is challenging in some cases. This article summarises the latest developments and process variations.
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Affiliation(s)
- Katharina Oehlenschläger
- Institute of Bioprocess Engineering, University of Kaiserslautern-Landau, Gottlieb-Daimler-Straße 49, 67663, Kaiserslautern, Germany
| | - Emily Schepp
- Institute of Process Engineering in Life Sciences, Karlsruhe Institute of Technology, Kaiserstraße 12, 76131, Karlsruhe, Germany
| | - Judith Stiefelmaier
- Institute of Bioprocess Engineering, University of Kaiserslautern-Landau, Gottlieb-Daimler-Straße 49, 67663, Kaiserslautern, Germany
| | - Dirk Holtmann
- Institute of Process Engineering in Life Sciences, Karlsruhe Institute of Technology, Kaiserstraße 12, 76131, Karlsruhe, Germany
| | - Roland Ulber
- Institute of Bioprocess Engineering, University of Kaiserslautern-Landau, Gottlieb-Daimler-Straße 49, 67663, Kaiserslautern, Germany.
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Haala F, Dielentheis-Frenken MRE, Brandt FM, Karmainski T, Blank LM, Tiso T. DoE-based medium optimization for improved biosurfactant production with Aureobasidium pullulans. Front Bioeng Biotechnol 2024; 12:1379707. [PMID: 38511129 PMCID: PMC10953688 DOI: 10.3389/fbioe.2024.1379707] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2024] [Accepted: 02/19/2024] [Indexed: 03/22/2024] Open
Abstract
Polyol lipids (a.k.a. liamocins) produced by the polyextremotolerant, yeast-like fungus Aureobasidium pullulans are amphiphilic molecules with high potential to serve as biosurfactants. So far, cultivations of A. pullulans have been performed in media with complex components, which complicates further process optimization due to their undefined composition. In this study, we developed and optimized a minimal medium, focusing on biosurfactant production. Firstly, we replaced yeast extract and peptone in the best-performing polyol lipid production medium to date with a vitamin solution, a trace-element solution, and a nitrogen source. We employed a design of experiments approach with a factor screening using a two-level-factorial design, followed by a central composite design. The polyol lipid titer was increased by 56% to 48 g L-1, and the space-time yield from 0.13 to 0.20 g L-1 h-1 in microtiter plate cultivations. This was followed by a successful transfer to a 1 L bioreactor, reaching a polyol lipid concentration of 41 g L-1. The final minimal medium allows the investigation of alternative carbon sources and the metabolic pathways involved, to pinpoint targets for genetic modifications. The results are discussed in the context of the industrial applicability of this robust and versatile fungus.
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Affiliation(s)
| | | | | | | | | | - Till Tiso
- Institute of Applied Microbiology, RWTH Aachen University, Aachen, Germany
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Estrada M, Navarrete C, Møller S, Quirós M, Martínez JL. Open (non-sterile) cultivations of Debaryomyces hansenii for recombinant protein production combining industrial side-streams with high salt content. N Biotechnol 2023; 78:105-115. [PMID: 37848161 DOI: 10.1016/j.nbt.2023.10.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2023] [Revised: 10/04/2023] [Accepted: 10/14/2023] [Indexed: 10/19/2023]
Abstract
The halotolerant non-conventional yeast Debaryomyces hansenii can grow in media containing high concentrations of salt (up to 4 M), metabolize alternative carbon sources than glucose, such as lactose or glycerol, and withstand a wide range of temperatures and pH. These inherent capabilities allow this yeast to grow in harsh environments and use alternative feedstock than traditional commercial media. For example, D. hansenii could be a potential cell factory for revalorizing industrial salty by-products, using them as a substrate for producing new valuable bioproducts, boosting a circular economy. In this work, three different salty by-products derived from the dairy and biopharmaceutical industry have been tested as a possible feedstock for D. hansenii's growth. The yeast was not only able to grow efficiently in all of them but also to produce a recombinant protein (Yellow Fluorescent Protein, used as a model) without altering its performance. Moreover, open cultivations at different laboratory scales (1.5 mL and 1 L) were performed under non-sterile conditions and without adding fresh water or any nutritional supplement to the cultivation, making the process cheaper and more sustainable.
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Affiliation(s)
- Mònica Estrada
- Technical University of Denmark, Department of Biotechnology and Biomedicine, Søltofts Plads Building 223, 2800 Kgs. Lyngby, Denmark
| | - Clara Navarrete
- Technical University of Denmark, Department of Biotechnology and Biomedicine, Søltofts Plads Building 223, 2800 Kgs. Lyngby, Denmark
| | - Sønke Møller
- SBU Food, Arla Food Ingredients Group P/S, Sønderhøj 10-12, 8260 Viby J, Denmark
| | - Manuel Quirós
- Novo Nordisk A/S. Biotech and Rare Disease API Manufacturing Development, Hagedornsvej 1, 2880 Gentofte, Denmark
| | - José L Martínez
- Technical University of Denmark, Department of Biotechnology and Biomedicine, Søltofts Plads Building 223, 2800 Kgs. Lyngby, Denmark.
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Zacharopoulos I, Theodoropoulos C. Continuous production of succinic acid from glycerol: A complete experimental and computational study. BIORESOURCE TECHNOLOGY 2023; 386:129518. [PMID: 37481041 DOI: 10.1016/j.biortech.2023.129518] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/07/2023] [Revised: 07/15/2023] [Accepted: 07/16/2023] [Indexed: 07/24/2023]
Abstract
In this work, a bioprocess for the fermentation of A. succinogenes for the production of succinic acid from glycerol was developed, employing a continuous bioreactor with recycle. Moreover, a new bioprocess model was constructed, based on an existing double substrate limitation model, which was validated with experimental results for a range of operating parameters. The model was used to successfully predict the dynamics of the continuous fermentation process and was subsequently employed in optimisation studies to compute the optimal conditions, dilution rate, reflux rate and feed glycerol concentration, that maximise the productivity of bio-succinic acid. In addition, a Pareto front for optimal volumetric productivity and glycerol conversion combinations was computed. Maximum volumetric productivity of 0.518 g/L/h, was achieved at the optimal computed conditions, which were experimentally validated. This is the highest bio-succinic acid productivity reported so far, for such a continuous bioprocess.
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Affiliation(s)
- Ioannis Zacharopoulos
- Department of Chemical Engineering, Biochemical and Bioprocess Engineering Group, The University of Manchester, Manchester M13 9PL, UK
| | - Constantinos Theodoropoulos
- Department of Chemical Engineering, Biochemical and Bioprocess Engineering Group, The University of Manchester, Manchester M13 9PL, UK.
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Peng Y, Xu P, Tao F. Production of N-acetylglucosamine with Vibrio alginolyticus FA2, an emerging platform for economical unsterile open fermentation. Synth Syst Biotechnol 2023; 8:546-554. [PMID: 37637200 PMCID: PMC10457514 DOI: 10.1016/j.synbio.2023.08.003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2023] [Revised: 08/01/2023] [Accepted: 08/09/2023] [Indexed: 08/29/2023] Open
Abstract
Members of the Vibrionaceae family are predominantly fast-growing and halophilic microorganisms that have captured the attention of researchers owing to their potential applications in rapid biotechnology. Among them, Vibrio alginolyticus FA2 is a particularly noteworthy halophilic bacterium that exhibits superior growth capability. It has the potential to serve as a biotechnological platform for sustainable and eco-friendly open fermentation with seawater. To evaluate this hypothesis, we integrated the N-acetylglucosamine (GlcNAc) pathway into V. alginolyticus FA2. Seven nag genes were knocked out to obstruct the utilization of GlcNAc, and then 16 exogenous gna1s co-expressing with EcglmS were introduced to strengthen the flux of GlcNAc pathway, respectively. To further enhance GlcNAc production, we fine-tuned promoter strength of the two genes and inactivated two genes alsS and alsD to prevent the production of acetoin. Furthermore, unsterile open fermentation was carried out using simulated seawater and a chemically defined medium, resulting in the production of 9.2 g/L GlcNAc in 14 h. This is the first report for de-novo synthesizing GlcNAc with a Vibrio strain, facilitated by an unsterile open fermentation process employing seawater as a substitute for fresh water. This development establishes a basis for production of diverse valuable chemicals using Vibrio strains and provides insights into biomanufacture.
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Affiliation(s)
- Yuan Peng
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, People's Republic of China
| | - Ping Xu
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, People's Republic of China
| | - Fei Tao
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, People's Republic of China
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Zhao L, Pan J, Ding Y, Cai S, Cai T, Chen L, Ji XM. Coupling continuous poly(3-hydroxybutyrate) synthesis with piperazine-contained wastewater treatment: Fermentation performance and microbial contamination deciphering. Int J Biol Macromol 2023; 226:1523-1532. [PMID: 36455823 DOI: 10.1016/j.ijbiomac.2022.11.264] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2022] [Revised: 11/21/2022] [Accepted: 11/24/2022] [Indexed: 11/30/2022]
Abstract
Open poly(3-hydroxybutyrate) (PHB) fermentation is of great potential, and batch PHB synthesis with piperazine as the nitrogen switch has been realized. However, it is vital to explore the feasibility of continuous PHB fermentation with piperazine-contained wastewater remediation collaboratively. Here, an aerobic membrane bioreactor was constructed for consecutive PHB synthesis. The removal efficiency of piperazine decreased from 100 % to 82.6 % after three cycles, meanwhile, the PHB concentration was 0.39 g·L-1, 0.18 g·L-1, and undetected for each cycle. Microbial community analysis showed that Proteobacteria, Actinobacteriota, and Bacteroidota were the main contaminating microbes. Furthermore, three metagenome-assembled genomes related to Flavobacterium collumnare, Herbaspirillum aquaticum, and Microbacterium enclense were identified as the dominant contaminating strains. These microbes obtained nitrogenous substrates transformed by Paracoccus sp. TOH, such as amino acids and dissolved organic matter, as nutrient for accumulation. This study verified the practicability of coupling continuous PHB synthesis with industrial wastewater treatment and revealed the derivation mechanism of contaminating species, which could provide a reference for the targeted nitrogen release gene knockout of functional PHB fermentation chassis.
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Affiliation(s)
- Leizhen Zhao
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China
| | - Jiachen Pan
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China
| | - Yi Ding
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China
| | - Shu Cai
- Department of Biological and Agricultural Engineering, University of California, Davis, CA 95616, United States
| | - Tianming Cai
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China
| | - Liwei Chen
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China.
| | - Xiao-Ming Ji
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China.
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Ma YC, Gao MR, Yang H, Jiang JY, Xie W, Su WP, Zhang B, Yeong YS, Guo WY, Sui LY. Optimization of C 50 Carotenoids Production by Open Fermentation of Halorubrum sp. HRM-150. Appl Biochem Biotechnol 2023; 195:3628-3640. [PMID: 36648604 DOI: 10.1007/s12010-023-04319-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/10/2023] [Indexed: 01/18/2023]
Abstract
C50 carotenoids, as unique bioactive molecules, have many biological properties, including antioxidant, anticancer, and antibacterial activity, and have a wide range of potential uses in the food, cosmetic, and biomedical industries. The majority of C50 carotenoids are produced by the sterile fermentation of halophilic archaea. This study aims to look at more cost-effective and manageable ways of producing C50 carotenoids. The basic medium, carbon source supplementation, and optimal culture conditions for Halorubrum sp. HRM-150 C50 carotenoids production by open fermentation were examined in this work. The results indicated that Halorubrum sp. HRM-150 grown in natural brine medium grew faster than artificial brine medium. The addition of glucose, sucrose, and lactose (10 g/L) enhanced both biomass and carotenoids productivity, with the highest level reaching 4.53 ± 0.32 μg/mL when glucose was added. According to the findings of orthogonal studies based on the OD600 and carotenoids productivity, the best conditions for open fermentation were salinity 20-25%, rotation speed 150-200 rpm, and pH 7.0-8.2. The up-scaled open fermentation was carried out in a 7 L medium under optimum culture conditions. At 96 h, the OD600 and carotenoids productivity were 9.86 ± 0.51 (dry weight 10.40 ± 1.27 g/L) and 7.31 ± 0.65 μg/mL (701.40 ± 21.51 μg/g dry weight, respectively). When amplified with both universal bacterial primer and archaeal primer in the open fermentation, Halorubrum remained the dominating species, indicating that contamination was kept within an acceptable level. To summarize, open fermentation of Halorubrum is a promising method for producing C50 carotenoids.
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Affiliation(s)
- Ying-Chao Ma
- Key Laboratory of Marine Resource Chemistry and Food Technology (TUST), Ministry of Education, Tianjin, China.,Asian Regional Artemia Reference Center, College of Marine and Environmental Sciences, Tianjin University of Science and Technology, Tianjin, 300457, China.,Tianjin Key Laboratory of Early Druggability Evaluation of Innovative Drugs, Tianjin International Joint Academy of Biomedicine, Tianjin, 300457, China
| | - Mei-Rong Gao
- Key Laboratory of Marine Resource Chemistry and Food Technology (TUST), Ministry of Education, Tianjin, China.,Asian Regional Artemia Reference Center, College of Marine and Environmental Sciences, Tianjin University of Science and Technology, Tianjin, 300457, China
| | - Huan Yang
- Asian Regional Artemia Reference Center, College of Marine and Environmental Sciences, Tianjin University of Science and Technology, Tianjin, 300457, China
| | - Jun-Yao Jiang
- Asian Regional Artemia Reference Center, College of Marine and Environmental Sciences, Tianjin University of Science and Technology, Tianjin, 300457, China
| | - Wei Xie
- Asian Regional Artemia Reference Center, College of Marine and Environmental Sciences, Tianjin University of Science and Technology, Tianjin, 300457, China
| | - Wan-Ping Su
- Asian Regional Artemia Reference Center, College of Marine and Environmental Sciences, Tianjin University of Science and Technology, Tianjin, 300457, China
| | - Bo Zhang
- Tianjin Key Laboratory of Early Druggability Evaluation of Innovative Drugs, Tianjin International Joint Academy of Biomedicine, Tianjin, 300457, China
| | - Yik-Sung Yeong
- Institute of Marine Biotechnology, Universiti Malaysia Terengganu, 21030, Kuala Nerus, Terengganu, Malaysia
| | - Wu-Yan Guo
- Tianjin Key Laboratory of Early Druggability Evaluation of Innovative Drugs, Tianjin International Joint Academy of Biomedicine, Tianjin, 300457, China
| | - Li-Ying Sui
- Key Laboratory of Marine Resource Chemistry and Food Technology (TUST), Ministry of Education, Tianjin, China. .,Asian Regional Artemia Reference Center, College of Marine and Environmental Sciences, Tianjin University of Science and Technology, Tianjin, 300457, China.
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10
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Esposito FP, Vecchiato V, Buonocore C, Tedesco P, Noble B, Basnett P, de Pascale D. Enhanced production of biobased, biodegradable, Poly(3-hydroxybutyrate) using an unexplored marine bacterium Pseudohalocynthiibacter aestuariivivens, isolated from highly polluted coastal environment. BIORESOURCE TECHNOLOGY 2023; 368:128287. [PMID: 36368485 DOI: 10.1016/j.biortech.2022.128287] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2022] [Revised: 11/02/2022] [Accepted: 11/03/2022] [Indexed: 06/16/2023]
Abstract
The production and disposal of plastics from limited fossil reserves, has prompted research for greener and sustainable alternatives. Polyhydroxyalkanoates (PHAs) are biocompatible, biodegradable, and thermoprocessable polyester produced by microbes. PHAs found several applications but their use is limited due to high production cost and low yields. Herein, for the first time, the isolation and characterization of Pseudohalocynthiibacter aestuariivivens P96, a marine bacterium able to produce surprising amount of PHAs is reported. In the best growth condition P96 was able to reach a maximum production of 4.73 g/L, corresponding to the 87 % of total cell dry-weight. Using scanning and transmission microscopy, lab-scale fermentation, spectroscopic techniques, and genome analysis, the production of thermoprocessable polymer Polyhydroxybutyrate P(3HB), a PHAs class, endowed with mechanical and thermal properties comparable to that of petroleum-based plastics was confirmed. This study represents a milestone toward the use of this unexplored marine bacterium for P(3HB) production.
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Affiliation(s)
- Fortunato Palma Esposito
- Department of Ecosustainable Marine Biotechnology, Stazione Zoologica Anton Dohrn, Via Ammiraglio Acton 55, 80133 Naples, Italy
| | - Vittoria Vecchiato
- Sustainable Biotechnology Research Group, School of Life Sciences, University of Westminster, London W1W6UW, United Kingdom
| | - Carmine Buonocore
- Department of Ecosustainable Marine Biotechnology, Stazione Zoologica Anton Dohrn, Via Ammiraglio Acton 55, 80133 Naples, Italy
| | - Pietro Tedesco
- Department of Ecosustainable Marine Biotechnology, Stazione Zoologica Anton Dohrn, Via Ammiraglio Acton 55, 80133 Naples, Italy
| | - Brendon Noble
- Sustainable Biotechnology Research Group, School of Life Sciences, University of Westminster, London W1W6UW, United Kingdom
| | - Pooja Basnett
- Sustainable Biotechnology Research Group, School of Life Sciences, University of Westminster, London W1W6UW, United Kingdom
| | - Donatella de Pascale
- Department of Ecosustainable Marine Biotechnology, Stazione Zoologica Anton Dohrn, Via Ammiraglio Acton 55, 80133 Naples, Italy.
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11
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Al-Khairy D, Fu W, Alzahmi AS, Twizere JC, Amin SA, Salehi-Ashtiani K, Mystikou A. Closing the Gap between Bio-Based and Petroleum-Based Plastic through Bioengineering. Microorganisms 2022; 10:microorganisms10122320. [PMID: 36557574 PMCID: PMC9787566 DOI: 10.3390/microorganisms10122320] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2022] [Revised: 11/17/2022] [Accepted: 11/21/2022] [Indexed: 11/25/2022] Open
Abstract
Bioplastics, which are plastic materials produced from renewable bio-based feedstocks, have been investigated for their potential as an attractive alternative to petroleum-based plastics. Despite the harmful effects of plastic accumulation in the environment, bioplastic production is still underdeveloped. Recent advances in strain development, genome sequencing, and editing technologies have accelerated research efforts toward bioplastic production and helped to advance its goal of replacing conventional plastics. In this review, we highlight bioengineering approaches, new advancements, and related challenges in the bioproduction and biodegradation of plastics. We cover different types of polymers, including polylactic acid (PLA) and polyhydroxyalkanoates (PHAs and PHBs) produced by bacterial, microalgal, and plant species naturally as well as through genetic engineering. Moreover, we provide detailed information on pathways that produce PHAs and PHBs in bacteria. Lastly, we present the prospect of using large-scale genome engineering to enhance strains and develop microalgae as a sustainable production platform.
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Affiliation(s)
- Dina Al-Khairy
- Division of Science and Math, New York University Abu Dhabi, Abu Dhabi 129188, United Arab Emirates
| | - Weiqi Fu
- Division of Science and Math, New York University Abu Dhabi, Abu Dhabi 129188, United Arab Emirates
- Department of Marine Science, Ocean College, Zhejiang University & Donghai Laboratory, Zhoushan 316021, China
| | - Amnah Salem Alzahmi
- Division of Science and Math, New York University Abu Dhabi, Abu Dhabi 129188, United Arab Emirates
- Center for Genomics and Systems Biology (CGSB), Institute Abu Dhabi, New York University Abu Dhabi, Abu Dhabi 129188, United Arab Emirates
| | - Jean-Claude Twizere
- Division of Science and Math, New York University Abu Dhabi, Abu Dhabi 129188, United Arab Emirates
- Laboratory of Viral Interactomes Networks, Unit of Molecular Biology of Diseases, Interdisciplinary Cluster for Applied Genoproteomics (GIGA Institute), University of Liège, 4000 Liège, Belgium
| | - Shady A. Amin
- Division of Science and Math, New York University Abu Dhabi, Abu Dhabi 129188, United Arab Emirates
- Center for Genomics and Systems Biology (CGSB), Institute Abu Dhabi, New York University Abu Dhabi, Abu Dhabi 129188, United Arab Emirates
| | - Kourosh Salehi-Ashtiani
- Division of Science and Math, New York University Abu Dhabi, Abu Dhabi 129188, United Arab Emirates
- Center for Genomics and Systems Biology (CGSB), Institute Abu Dhabi, New York University Abu Dhabi, Abu Dhabi 129188, United Arab Emirates
- Correspondence: (K.S.-A.); (A.M.)
| | - Alexandra Mystikou
- Division of Science and Math, New York University Abu Dhabi, Abu Dhabi 129188, United Arab Emirates
- Center for Genomics and Systems Biology (CGSB), Institute Abu Dhabi, New York University Abu Dhabi, Abu Dhabi 129188, United Arab Emirates
- Correspondence: (K.S.-A.); (A.M.)
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12
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Lee JA, Kim HU, Na JG, Ko YS, Cho JS, Lee SY. Factors affecting the competitiveness of bacterial fermentation. Trends Biotechnol 2022; 41:798-816. [PMID: 36357213 DOI: 10.1016/j.tibtech.2022.10.005] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2022] [Revised: 10/05/2022] [Accepted: 10/12/2022] [Indexed: 11/09/2022]
Abstract
Sustainable production of chemicals and materials from renewable non-food biomass using biorefineries has become increasingly important in an effort toward the vision of 'net zero carbon' that has recently been pledged by countries around the world. Systems metabolic engineering has allowed the efficient development of microbial strains overproducing an increasing number of chemicals and materials, some of which have been translated to industrial-scale production. Fermentation is one of the key processes determining the overall economics of bioprocesses, but has recently been attracting less research attention. In this Review, we revisit and discuss factors affecting the competitiveness of bacterial fermentation in connection to strain development by systems metabolic engineering. Future perspectives for developing efficient fermentation processes are also discussed.
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Affiliation(s)
- Jong An Lee
- Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering (BK21 four), KAIST Institute for BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea; Systems Metabolic Engineering and Systems Healthcare Cross-Generation Collaborative Laboratory, KAIST, Daejeon 34141, Republic of Korea
| | - Hyun Uk Kim
- Systems Metabolic Engineering and Systems Healthcare Cross-Generation Collaborative Laboratory, KAIST, Daejeon 34141, Republic of Korea; Systems Biology and Medicine Laboratory, Department of Chemical and Biomolecular Engineering, KAIST, Daejeon 34141, Republic of Korea; BioProcess Engineering Research Center and BioInformatics Research Center, KAIST, Daejeon 34141, Republic of Korea
| | - Jeong-Geol Na
- Department of Chemical and Biomolecular Engineering, Sogang University, Seoul 04107, Republic of Korea
| | - Yoo-Sung Ko
- Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering (BK21 four), KAIST Institute for BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea; Systems Metabolic Engineering and Systems Healthcare Cross-Generation Collaborative Laboratory, KAIST, Daejeon 34141, Republic of Korea
| | - Jae Sung Cho
- Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering (BK21 four), KAIST Institute for BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea; Systems Metabolic Engineering and Systems Healthcare Cross-Generation Collaborative Laboratory, KAIST, Daejeon 34141, Republic of Korea
| | - Sang Yup Lee
- Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering (BK21 four), KAIST Institute for BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea; Systems Metabolic Engineering and Systems Healthcare Cross-Generation Collaborative Laboratory, KAIST, Daejeon 34141, Republic of Korea; BioProcess Engineering Research Center and BioInformatics Research Center, KAIST, Daejeon 34141, Republic of Korea.
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13
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Ivušić F, Rezić T, Šantek B. Heterotrophic Cultivation of Euglena gracilis in Stirred Tank Bioreactor: A Promising Bioprocess for Sustainable Paramylon Production. Molecules 2022; 27:molecules27185866. [PMID: 36144601 PMCID: PMC9502384 DOI: 10.3390/molecules27185866] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2022] [Revised: 08/30/2022] [Accepted: 09/04/2022] [Indexed: 11/16/2022] Open
Abstract
Paramylon is a valuable intracellular product of the microalgae Euglena gracilis, and it can accumulate in Euglena cells according to the cultivation conditions. For the sustainable production of paramylon and appropriate cell growth, different bioreactor processes and industrial byproducts can be considered as substrates. In this study, a complex medium with corn steep solid (CSS) was used, and various bioreactor processes (batch, fed batch, semicontinuous and continuous) were performed in order to maximize paramylon production in the microalgae Euglena gracilis. Compared to the batch, fed batch and repeated batch bioprocesses, during the continuous bioprocess in a stirred tank bioreactor (STR) with a complex medium containing 20 g/L of glucose and 25 g/L of CSS, E. gracilis accumulated a competitive paramylon content (67.0%), and the highest paramylon productivity of 0.189 g/Lh was observed. This demonstrated that the application of a continuous bioprocess, with corn steep solid as an industrial byproduct, can be a successful strategy for efficient and economical paramylon production.
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Affiliation(s)
- Franjo Ivušić
- Croatian Academy of Sciences and Arts, Vlaha Bukovca 14, 20000 Dubrovnik, Croatia
| | - Tonči Rezić
- Faculty of Food Technology and Biotechnology, University of Zagreb, Pierottijeva 6, 10000 Zagreb, Croatia
- Correspondence:
| | - Božidar Šantek
- Faculty of Food Technology and Biotechnology, University of Zagreb, Pierottijeva 6, 10000 Zagreb, Croatia
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14
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Meng W, Zhang Y, Ma L, Lü C, Xu P, Ma C, Gao C. Non-Sterilized Fermentation of 2,3-Butanediol with Seawater by Metabolic Engineered Fast-Growing Vibrio natriegens. Front Bioeng Biotechnol 2022; 10:955097. [PMID: 35903792 PMCID: PMC9315368 DOI: 10.3389/fbioe.2022.955097] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2022] [Accepted: 06/21/2022] [Indexed: 11/13/2022] Open
Abstract
Sustainable and environment-friendly microbial fermentation processes have been developed to produce numerous chemicals. However, the high energy input required for sterilization and substantial fresh water consumption restrict the economic feasibility of traditional fermentation processes. To address these problems, Vibrio natriegens, a promising microbial chassis with low nutritional requirements, high salt tolerance and rapid growth rate can be selected as the host for chemical production. In this study, V. natriegens was metabolic engineered to produce 2,3-butanediol (2,3-BD), an important platform chemical, through non-sterilized fermentation with seawater-based minimal medium after expressing a 2,3-BD synthesis cluster and deleting two byproduct encoding genes. Under optimized fermentative conditions, 41.27 g/L 2,3-BD was produced with a productivity of 3.44 g/L/h and a yield of 0.39 g/g glucose by recombinant strain V. natriegensΔfrdAΔldhA-pETRABC. This study confirmed the feasibility of non-sterilized fermentation using seawater to replace freshwater and other valuable chemicals may also be produced through metabolic engineering of the emerging synthetic biology chassis V. natriegens.
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Affiliation(s)
- Wensi Meng
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
| | - Yongjia Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
| | - Liting Ma
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
| | - Chuanjuan Lü
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
| | - Ping Xu
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic and Developmental Sciences, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
| | - Cuiqing Ma
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
| | - Chao Gao
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
- *Correspondence: Chao Gao,
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15
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Zhao L, Cai S, Zhang J, Zhang Q, Chen L, Ji X, Zhang R, Cai T. Poly(3-hydroxybutyrate) biosynthesis under non-sterile conditions: Piperazine as nitrogen substrate control switch. Int J Biol Macromol 2022; 209:1457-1464. [PMID: 35461873 DOI: 10.1016/j.ijbiomac.2022.04.122] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2022] [Revised: 04/14/2022] [Accepted: 04/17/2022] [Indexed: 11/16/2022]
Abstract
Poly(3-hydroxybutyrate) (PHB), as a kind of bioplastics for sustainable development, can be synthesized by various microorganisms, however, the high cost of its microbial fermentation is a challenge for its large-scale application. In this study, piperazine degrading strain, Paracoccus sp. TOH, was developed as an excellent chassis for open PHB fermentation with piperazine as controlling element. Whole-genome analysis showed that TOH possesses multi-substrate metabolic pathways to synthesize PHB. Next, TOH could achieve a maximum PHB concentration of 2.42 g L-1, representing a yield of 0.36 g-PHB g-1-glycerol when C/N ratio was set as 60:1 with 10 g L-1 glycerol as substrate. Furthermore, TOH could even synthesize 0.39 g-PHB g-1-glycerol under non-sterile conditions when piperazine was fed with a suitable rate of 1 mg L-1 h-1. 16S rRNA gene sequencing analysis showed that microbial contamination could be effectively inhibited through the regulation of piperazine under non-sterile conditions and TOH dominated the microbial community with a relative abundance of 72.3% at the end of the operational period. This study offers an inspired open PHB fermentation system with piperazine as the control switch, which will realize the goal of efficient industrial biotechnology as well as industrial wastewater treatment.
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Affiliation(s)
- Leizhen Zhao
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Shu Cai
- Department of Biological and Agricultural Engineering, University of California, Davis, CA 95616, United States
| | - Jiaqi Zhang
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Qi Zhang
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Liwei Chen
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Xiaoming Ji
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Ruihong Zhang
- Department of Biological and Agricultural Engineering, University of California, Davis, CA 95616, United States
| | - Tianming Cai
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China.
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16
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Khan AH, Salout SA, Shupletsov L, De A, Senkovska I, Kaskel S, Brunner E. Solid-state NMR insights into alcohol adsorption by metal-organic frameworks: adsorption state, selectivity, and adsorption-induced phase transitions. Chem Commun (Camb) 2022; 58:4492-4495. [PMID: 35302127 DOI: 10.1039/d2cc00638c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Alcohol adsorption by metal-organic frameworks (ZIF-8 and ZIF-11) in aqueous solutions is investigated including alcohol mixtures. Solid-state 13C NMR spectroscopy is demonstrated to be well-suited for such liquid-phase adsorption studies at the molecular level. Adsorption-induced immobilization could be visualized. Finally, an unexpected phase transition of ZIF-11 was discovered.
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Affiliation(s)
- Arafat Hossain Khan
- Chair of Bioanalytical Chemistry, TU Dresden, Bergstraße 66, 01069 Dresden, Germany.
| | - Sara Amanzadeh Salout
- Chair of Bioanalytical Chemistry, TU Dresden, Bergstraße 66, 01069 Dresden, Germany.
| | - Leonid Shupletsov
- Chair of Inorganic Chemistry I, TU Dresden, Bergstraße 66, 01069 Dresden, Germany
| | - Ankita De
- Chair of Inorganic Chemistry I, TU Dresden, Bergstraße 66, 01069 Dresden, Germany
| | - Irena Senkovska
- Chair of Inorganic Chemistry I, TU Dresden, Bergstraße 66, 01069 Dresden, Germany
| | - Stefan Kaskel
- Chair of Inorganic Chemistry I, TU Dresden, Bergstraße 66, 01069 Dresden, Germany
| | - Eike Brunner
- Chair of Bioanalytical Chemistry, TU Dresden, Bergstraße 66, 01069 Dresden, Germany.
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17
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Parachlorella kessleri growth kinetics modeling with physiological output variables evaluation. ALGAL RES 2021. [DOI: 10.1016/j.algal.2021.102507] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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18
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Development of a continuous aqueous two-phase flotation process for the downstream processing of biotechnological products. Sep Purif Technol 2021. [DOI: 10.1016/j.seppur.2021.119657] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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19
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Strucko T, Andersen NL, Mahler MR, Martínez JL, Mortensen UH. A CRISPR/Cas9 method facilitates efficient oligo-mediated gene editing in Debaryomyces hansenii. Synth Biol (Oxf) 2021; 6:ysab031. [PMID: 34746438 PMCID: PMC8566172 DOI: 10.1093/synbio/ysab031] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Revised: 09/20/2021] [Accepted: 10/11/2021] [Indexed: 11/27/2022] Open
Abstract
Halophilic and osmotolerant yeast Debaryomyces hansenii has a high potential for cell factory applications due to its resistance to harsh environmental factors and compatibility with a wide substrate range. However, currently available genetic techniques do not allow the full potential of D. hansenii as a cell factory to be harnessed. Moreover, most of the currently available tools rely on the use of auxotrophic markers that are not suitable in wild-type prototrophic strains. In addition, the preferred non-homologous end-joining (NHEJ) DNA damage repair mechanism poses further challenges when precise gene targeting is required. In this study, we present a novel plasmid-based CRISPRCUG/Cas9 method for easy and efficient gene editing of the prototrophic strains of D. hansenii. Our toolset design is based on a dominant marker and facilitates quick assembly of the vectors expressing Cas9 and single or multiple single-guide RNAs (sgRNAs) that provide the possibility for multiplex gene engineering even in prototrophic strains. Moreover, we have constructed NHEJ-deficient D. hansenii that enable our CRISPRCUG/Cas9 tools to support the highly efficient introduction of point mutations and single/double gene deletions. Importantly, we also demonstrate that 90-nt single-stranded DNA oligonucleotides are sufficient for direct repair of DNA breaks induced by sgRNA-Cas9, resulting in precise edits reaching 100% efficiencies. In conclusion, tools developed in this study will greatly advance basic and applied research in D. hansenii. In addition, we envision that our tools can be rapidly adapted for gene editing of other non-conventional yeast species including the ones belonging to the CUG clade.
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Affiliation(s)
- Tomas Strucko
- Department of Biotechnology and Biomedicine, Section for Synthetic Biology, Technical University of Denmark, Kongens Lyngby, Hovedstaden, Denmark
| | - Niklas L Andersen
- Department of Biotechnology and Biomedicine, Section for Synthetic Biology, Technical University of Denmark, Kongens Lyngby, Hovedstaden, Denmark
| | - Mikkel R Mahler
- Department of Biotechnology and Biomedicine, Section for Synthetic Biology, Technical University of Denmark, Kongens Lyngby, Hovedstaden, Denmark
| | - José L Martínez
- Department of Biotechnology and Biomedicine, Section for Synthetic Biology, Technical University of Denmark, Kongens Lyngby, Hovedstaden, Denmark
| | - Uffe H Mortensen
- Department of Biotechnology and Biomedicine, Section for Synthetic Biology, Technical University of Denmark, Kongens Lyngby, Hovedstaden, Denmark
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20
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Changes in the volatile composition of apple and apple/pear ciders affected by the different dilution rates in the continuous fermentation system. Lebensm Wiss Technol 2021. [DOI: 10.1016/j.lwt.2021.111630] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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21
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Fruit Waste Substrates to Produce Single-Cell Proteins as Alternative Human Food Supplements and Animal Feeds Using Baker’s Yeast (Saccharomyces cerevisiae). J FOOD QUALITY 2021. [DOI: 10.1155/2021/9932762] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
Production of single-cell proteins (SCP) utilizing food wastes is an alternative solution to meet the global protein shortage and minimize pollution problems. Utilization of fruit wastes to produce SCP via fermentation using Saccharomyces cerevisiae for animal feed and potential human food was studied. The waste materials such as Mango (Mangifera indica), Prickly Custard Apple (Annona muricata), Pineapple (Ananas comosus), Papaya (Carica papaya), Banana (Musa accuminara Colla), Mangosteen (Garcinia mangostana), Cashew apple (Anacardium occidentale), Cacao (Theobroma cacao), Jackfruit (Artocarpus heterophyllus), and Pomegranate (Punica granatum) were used as the substrates for SCP production. Maximum biomass production yield and protein production were significantly higher on the fourth day (
) in all the fruit waste substrates. The maximum dried biomass and the protein production were significantly higher (
) in the PAM substrate (0.429 ± 0.004 g and 48.32 ± 2.84% resp.) than the others, and PGM substrate yielded significantly lower biomass and protein. Considering the moisture content and ash content, the highest values were observed in JM and BM substrates, respectively, while the least values were observed in CM and PGM substrates. The bulk density values were ranging from 0.31 to 0.61 g/cm3. The values for water absorption capacity and oil absorption capacity (mL/g) were high in all substrates, and they were comparable to each of them.
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22
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Zhang Y, Li Z, Liu Y, Cen X, Liu D, Chen Z. Systems metabolic engineering of Vibrio natriegens for the production of 1,3-propanediol. Metab Eng 2021; 65:52-65. [PMID: 33722653 DOI: 10.1016/j.ymben.2021.03.008] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2020] [Revised: 02/28/2021] [Accepted: 03/06/2021] [Indexed: 11/18/2022]
Abstract
The economic viability of current bio-production systems is often limited by its low productivity due to slow cell growth and low substrate uptake rate. The fastest-growing bacterium Vibrio natriegens is a highly promising next-generation workhorse of the biotechnology industry which can utilize various industrially relevant carbon sources with high substrate uptake rates. Here, we demonstrate the first systematic engineering example of V. natriegens for the heterologous production of 1,3-propanediol (1,3-PDO) from glycerol. Systems metabolic engineering strategies have been applied in this study to develop a superior 1,3-PDO producer, including: (1) heterologous pathway construction and optimization; (2) engineering cellular transcriptional regulators and global transcriptomic analysis; (3) enhancing intracellular reducing power by cofactor engineering; (4) reducing the accumulation of toxic intermediate by pathway engineering; (5) systematic engineering of glycerol oxidation pathway to eliminate byproduct formation. A final engineered strain can efficiently produce 1,3-PDO with a titer of 56.2 g/L, a yield of 0.61 mol/mol, and an average productivity of 2.36 g/L/h. The strategies described in this study would be useful for engineering V. natriegens as a potential chassis for the production of other useful chemicals and biofuels.
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Affiliation(s)
- Ye Zhang
- Key Laboratory of Industrial Biocatalysis (Ministry of Education), Department of Chemical Engineering, Tsinghua University, Beijing, 100084, China
| | - Zihua Li
- Key Laboratory of Industrial Biocatalysis (Ministry of Education), Department of Chemical Engineering, Tsinghua University, Beijing, 100084, China
| | - Yu Liu
- Key Laboratory of Industrial Biocatalysis (Ministry of Education), Department of Chemical Engineering, Tsinghua University, Beijing, 100084, China
| | - Xuecong Cen
- Key Laboratory of Industrial Biocatalysis (Ministry of Education), Department of Chemical Engineering, Tsinghua University, Beijing, 100084, China
| | - Dehua Liu
- Key Laboratory of Industrial Biocatalysis (Ministry of Education), Department of Chemical Engineering, Tsinghua University, Beijing, 100084, China; Tsinghua Innovation Center in Dongguan, Dongguan, 523808, China; Center for Synthetic and Systems Biology, Tsinghua University, Beijing, 100084, China
| | - Zhen Chen
- Key Laboratory of Industrial Biocatalysis (Ministry of Education), Department of Chemical Engineering, Tsinghua University, Beijing, 100084, China; Tsinghua Innovation Center in Dongguan, Dongguan, 523808, China; Center for Synthetic and Systems Biology, Tsinghua University, Beijing, 100084, China.
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23
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An overview of drive systems and sealing types in stirred bioreactors used in biotechnological processes. Appl Microbiol Biotechnol 2021; 105:2225-2242. [PMID: 33649923 PMCID: PMC7954712 DOI: 10.1007/s00253-021-11180-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2020] [Revised: 02/05/2021] [Accepted: 02/14/2021] [Indexed: 12/27/2022]
Abstract
No matter the scale, stirred tank bioreactors are the most commonly used systems in biotechnological production processes. Single-use and reusable systems are supplied by several manufacturers. The type, size, and number of impellers used in these systems have a significant influence on the characteristics and designs of bioreactors. Depending on the desired application, classic shaft-driven systems, bearing-mounted drives, or stirring elements that levitate freely in the vessel may be employed. In systems with drive shafts, process hygiene requirements also affect the type of seal used. For sensitive processes with high hygienic requirements, magnetic-driven stirring systems, which have been the focus of much research in recent years, are recommended. This review provides the reader with an overview of the most common agitation and seal types implemented in stirred bioreactor systems, highlights their advantages and disadvantages, and explains their possible fields of application. Special attention is paid to the development of magnetically driven agitators, which are widely used in reusable systems and are also becoming more and more important in their single-use counterparts. Key Points • Basic design of the most frequently used bioreactor type: the stirred tank bioreactor • Differences in most common seal types in stirred systems and fields of application • Comprehensive overview of commercially available bioreactor seal types • Increased use of magnetically driven agitation systems in single-use bioreactors
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24
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Tan D, Wang Y, Tong Y, Chen GQ. Grand Challenges for Industrializing Polyhydroxyalkanoates (PHAs). Trends Biotechnol 2021; 39:953-963. [PMID: 33431229 DOI: 10.1016/j.tibtech.2020.11.010] [Citation(s) in RCA: 83] [Impact Index Per Article: 27.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2020] [Revised: 11/17/2020] [Accepted: 11/17/2020] [Indexed: 02/06/2023]
Abstract
Polyhydroxyalkanoates (PHAs) are a diverse family of sustainable bioplastics synthesized by various bacteria, but their high production cost and unstable material properties make them challenging to use in commercial applications. Current industrial biotechnology (CIB) employs conventional microbial chassis, leading to high production costs. However, next-generation industrial biotechnology (NGIB) approaches, based on fast-growing and contamination-resistant extremophilic Halomonas spp., allow stable continuous processing and thus economical production of PHAs with stable properties. Halomonas spp. designed and constructed using synthetic biology not only produce low-cost intracellular PHAs but also secrete extracellular soluble products for improved process economics. Next-generation industrial biotechnology is expected to reduce the bioproduction cost and process complexity, leading to successful commercial production of PHAs.
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Affiliation(s)
- Dan Tan
- Key Laboratory of Biomedical Information Engineering of Ministry of Education, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an 710049, China
| | - Ying Wang
- Institute of Biochemical Engineering, School of Chemistry and Chemical Engineering, Beijing Institute of Technology, Beijing 100081, China
| | - Yi Tong
- National Engineering Research Center for Corn Deep Processing, COFCO, Changchun 130033, Jilin, China
| | - Guo-Qiang Chen
- School of Life Sciences, Tsinghua University, Beijing 100084, China; Tsinghua-Peking Center for Life Sciences, Beijing 100084, China; MOE Key Lab on Industrial Biocatalyst, Department of Chemical Engineering, Tsinghua University, Beijing 100084, China.
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25
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Zhao X, Zheng H, Zhen J, Shu W, Yang S, Xu J, Song H, Ma Y. Multiplex genetic engineering improves endogenous expression of mesophilic α-amylase gene in a wild strain Bacillus amyloliquefaciens 205. Int J Biol Macromol 2020; 165:609-618. [PMID: 33010275 DOI: 10.1016/j.ijbiomac.2020.09.210] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2020] [Revised: 09/22/2020] [Accepted: 09/23/2020] [Indexed: 12/17/2022]
Abstract
A wild strain Bacillus amyloliquefaciens 205 was screened for its high activity of α-amylase. A mesophilic α-amylase encoding gene amyE-205 was revealed and analyzed by genome sequencing. In order to facilitate plasmid transformation to strain 205, an interspecific plasmid transformation method was improved with 5-13 times higher in transformants than that of electronic transformation. A series of CRISPR genome editing tools have been successfully constructed for gene knockout, transcript repression and activation in 205 genome. At this basis, sporulation related genes spo0A and spoIIAC were knockout and suppressed with CRISPR/Cas9 and CRISPR/dCas9 respectively. The double knockout strain 205spo- was eliminated sporulation with 22.8% increasing of α-amylase activity. The optimal binding site G8 for dCas9-ω has been confirmed in the transcript activation. When amyE-205 was over-expressed with high copy plasmid pUC980-2, its whole upstream sequences containing G8 were also cloned. Whereafter, dCas9-ω was used to activate amyE-205 expression both at genome and plasmid. The final engineered strain 205PG8spo- achieved 784.3% promotion on α-amylase activity than the starting strain 205. The novel genetic tool box containing an efficient interspecific transformation method and functional CRISPR systems, superadded the multiplex regulation strategies used in strain modification would be also applicative in many Bacillus species.
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Affiliation(s)
- Xingya Zhao
- Industrial Enzymes National Engineering Laboratory, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
| | - Hongchen Zheng
- Industrial Enzymes National Engineering Laboratory, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China; Tianjin Key Laboratory for Industrial Biological Systems and Bioprocessing Engineering, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China.
| | - Jie Zhen
- Tianjin Key Laboratory for Industrial Biological Systems and Bioprocessing Engineering, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
| | - Wenju Shu
- Industrial Enzymes National Engineering Laboratory, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
| | - Shibin Yang
- Industrial Enzymes National Engineering Laboratory, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
| | - Jianyong Xu
- Tianjin Key Laboratory for Industrial Biological Systems and Bioprocessing Engineering, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
| | - Hui Song
- Industrial Enzymes National Engineering Laboratory, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China; Tianjin Key Laboratory for Industrial Biological Systems and Bioprocessing Engineering, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China.
| | - Yanhe Ma
- Industrial Enzymes National Engineering Laboratory, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China.
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Zhou JJ, Shen JT, Wang XL, Sun YQ, Xiu ZL. Metabolism, morphology and transcriptome analysis of oscillatory behavior of Clostridium butyricum during long-term continuous fermentation for 1,3-propanediol production. BIOTECHNOLOGY FOR BIOFUELS 2020; 13:191. [PMID: 33292405 PMCID: PMC7690194 DOI: 10.1186/s13068-020-01831-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2020] [Accepted: 11/16/2020] [Indexed: 05/20/2023]
Abstract
BACKGROUND Oscillation is a special cell behavior in microorganisms during continuous fermentation, which poses threats to the output stability for industrial productions of biofuels and biochemicals. In previous study, a spontaneous oscillatory behavior was observed in Clostridium butyricum-intensive microbial consortium in continuous fermentation for 1,3-propanediol (1,3-PDO) production from glycerol, which led to the discovery of oscillation in species C. butyricum. RESULTS Spontaneous oscillations by C. butyricum tended to occur under glycerol-limited conditions at low dilution rates. At a glycerol feed concentration of 88 g/L and a dilution rate of 0.048 h-1, the oscillatory behavior of C. butyricum was observed after continuous operation for 146 h and was sustained for over 450 h with an average oscillation period of 51 h. During oscillations, microbial glycerol metabolism exhibited dramatic periodic changes, in which productions of lactate, formate and hydrogen significantly lagged behind that of other products including biomass, 1,3-PDO and butyrate. Analysis of extracellular oxidation-reduction potential and intracellular ratio of NAD+/NADH indicated that microbial cells experienced distinct redox changes during oscillations, from oxidized to reduced state with decreasing of growth rate. Meanwhile, C. butyricum S3 exhibited periodic morphological changes during oscillations, with aggregates, elongated shape, spores or cell debris at the trough of biomass production. Transcriptome analysis indicated that expression levels of multiple genes were up-regulated when microbial cells were undergoing stress, including that for pyruvate metabolism, conversion of acetyl-CoA to acetaldehyde as well as stress response. CONCLUSION This study for the first time systematically investigated the oscillatory behavior of C. butyricum in aspect of occurrence condition, metabolism, morphology and transcriptome. Based on the experimental results, two hypotheses were put forward to explain the oscillatory behavior: disorder of pyruvate metabolism, and excessive accumulation of acetaldehyde.
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Affiliation(s)
- Jin-Jie Zhou
- School of Bioengineering, Dalian University of Technology, Dalian, Liaoning, 116024, People's Republic of China
| | - Jun-Tao Shen
- School of Bioengineering, Dalian University of Technology, Dalian, Liaoning, 116024, People's Republic of China
| | - Xiao-Li Wang
- School of Bioengineering, Dalian University of Technology, Dalian, Liaoning, 116024, People's Republic of China
| | - Ya-Qin Sun
- School of Bioengineering, Dalian University of Technology, Dalian, Liaoning, 116024, People's Republic of China
| | - Zhi-Long Xiu
- School of Bioengineering, Dalian University of Technology, Dalian, Liaoning, 116024, People's Republic of China.
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Alpha-Ketoglutaric Acid Production from a Mixture of Glycerol and Rapeseed Oil by Yarrowia lipolytica Using Different Substrate Feeding Strategies. SUSTAINABILITY 2020. [DOI: 10.3390/su12156109] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
The microbiological biosynthesis of α-ketoglutaric acid (KGA) has recently captured the attention of many scientists as an alternative to its common chemical synthesis. The present study aimed to evaluate the effect of the feeding strategy of substrates, i.e., glycerol (G = 20 g·dm−3) and rapeseed oil (O = 20 g·dm−3), on yeast growth and the parameters of KGA biosynthesis by a wild strain Yarrowia lipolytica A-8 in fed-batch and repeated-batch cultures. The effectiveness of KGA biosynthesis was demonstrated to depend on thiamine concentration and the substrate feeding method. In the fed-batch culture incubated with 3 µg·dm−3 of thiamine and a substrate feeding variant 2G(_OGO), KGA was produced in the amount of 62.1 g·dm−3 at the volumetric production rate of 0.37 g·dm−3·h−1. These values of KGA production parameters were higher than these obtained in the control culture (with rapeseed oil only). During 10 cycles of the 1788-h repeated-batch culture carried out acc. to the feeding strategy 2G(_OGO), in the last 5 cycles the yeast produced from 55.6 to 58.2 g·dm−3 of KGA and maximally 2.9 g·dm−3 of the pyruvic acid as a by-product.
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Biosynthesis of functional polyhydroxyalkanoates by engineered Halomonas bluephagenesis. Metab Eng 2020; 59:119-130. [DOI: 10.1016/j.ymben.2020.02.005] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2020] [Revised: 02/07/2020] [Accepted: 02/25/2020] [Indexed: 11/23/2022]
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Mařík K, Tichá L, Vobecká L, Přibyl M. Theoretical study on enzyme synthesis of cephalexin in a parallel-flow microreactor combined with electrically driven ATPS microextraction. REACT CHEM ENG 2020. [DOI: 10.1039/c9re00482c] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A mathematical model of a microfluidic device with two aqueous phases for the simultaneous cephalexin production and its separation from a reaction mixture was developed. The model anticipates the continuous cephalexin synthesis and enzyme recyclation.
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Affiliation(s)
- Karel Mařík
- Department of Chemical Engineering
- University of Chemistry and Technology, Prague
- 166 28 Praha 6
- Czech Republic
| | - Linda Tichá
- Department of Chemical Engineering
- University of Chemistry and Technology, Prague
- 166 28 Praha 6
- Czech Republic
| | - Lucie Vobecká
- Department of Chemical Engineering
- University of Chemistry and Technology, Prague
- 166 28 Praha 6
- Czech Republic
| | - Michal Přibyl
- Department of Chemical Engineering
- University of Chemistry and Technology, Prague
- 166 28 Praha 6
- Czech Republic
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Soft Sensor-Based Monitoring and Efficient Control Strategies of Biomass Concentration for Continuous Cultures of Haloferax mediterranei and Their Application to an Industrial Production Chain. Microorganisms 2019; 7:microorganisms7120648. [PMID: 31817128 PMCID: PMC6956367 DOI: 10.3390/microorganisms7120648] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2019] [Revised: 11/21/2019] [Accepted: 12/03/2019] [Indexed: 11/17/2022] Open
Abstract
Continuous bioprocessing using cell retention allows the achievement of high space-time yields for slow-growing organisms such as halophiles. However, the lack of efficient methods for monitoring and control limits the application of biotechnological processes in the industry. The aim of this study was to implement a control and online monitoring strategy for biomass in continuous cultures. For the first time, a feedforward cultivation strategy in a membrane-based cell retention system allowed to control the biomass concentration of the extreme halophilic Haloferax mediterranei at defined levels. Moreover, soft sensor-based biomass estimation allowed reliable monitoring of biomass online. Application of the combined monitoring and control strategy using industrial process water containing formate, phenol, aniline and 4,4′-methylenedianiline could for the first time demonstrate high throughput degradation in this extremophilic bioremediation process, obtaining degradation efficiencies of up to 100%. This process demonstrates the usefulness of continuous halophilic cultures in a circular economy application.
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Djukić-Vuković A, Lazović S, Mladenović D, Knežević-Jugović Z, Pejin J, Mojović L. Non-thermal plasma and ultrasound-assisted open lactic acid fermentation of distillery stillage. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2019; 26:35543-35554. [PMID: 30949947 DOI: 10.1007/s11356-019-04894-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2018] [Accepted: 03/18/2019] [Indexed: 06/09/2023]
Abstract
Stillage is the main by-product of bioethanol production and the cost of its treatment significantly affects the economy of bioethanol production. A process of thermal sterilization before lactic acid fermentation (LAF) is energy demanding and is causing deterioration of valuable compounds in stillage. In this study, ultrasound (UT) and plasma (PT) treatments were used for microbial inactivation, and a significant reduction in the number of viable microorganisms in the stillage after PT and UT was observed. After application of treatment, LAF by Lactobacillus rhamnosus ATCC 7469 was initiated. The concentration of LA is used to quantify the efficiency of the stillage revalorization. The highest LA productivity of 1.21 g/Lh and yield of 0.82 g/g were obtained after PT, while UT of 10 min provided productivity of 1.02 g/Lh and LA yield of 0.69 g/g. The results were benchmarked against closed LAF. Around 20% better revalorization of stillage by PT was achieved when compared with conventional sterilization. In addition, an excellent L (+) LA stereoselectivity of 95.5% was attained after PT. From the aspect of energy efficiency, that of PT was three times lower than UT and almost ten times lower than thermal sterilization, but it is the most expensive due to the high consumption of gas which could reduce application of closed Ar atmosphere on larger scales. This way, a simpler and energy efficient process for LA production on stillage was accomplished by "open" fermentation.
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Affiliation(s)
- Aleksandra Djukić-Vuković
- Department of Biochemical Engineering and Biotechnology, Faculty of Technology and Metallurgy, University of Belgrade, Karnegijeva 4, Belgrade, 11120, Serbia.
| | - Saša Lazović
- Institute of Physics Belgrade, University of Belgrade, Belgrade, Serbia
| | - Dragana Mladenović
- Department of Biochemical Engineering and Biotechnology, Faculty of Technology and Metallurgy, University of Belgrade, Karnegijeva 4, Belgrade, 11120, Serbia
| | - Zorica Knežević-Jugović
- Department of Biochemical Engineering and Biotechnology, Faculty of Technology and Metallurgy, University of Belgrade, Karnegijeva 4, Belgrade, 11120, Serbia
| | - Jelena Pejin
- Faculty of Technology, University of Novi Sad, Novi Sad, Serbia
| | - Ljiljana Mojović
- Department of Biochemical Engineering and Biotechnology, Faculty of Technology and Metallurgy, University of Belgrade, Karnegijeva 4, Belgrade, 11120, Serbia
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Zhou C, Zhou H, Zhang H, Lu F. Optimization of alkaline protease production by rational deletion of sporulation related genes in Bacillus licheniformis. Microb Cell Fact 2019; 18:127. [PMID: 31345221 PMCID: PMC6657089 DOI: 10.1186/s12934-019-1174-1] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2019] [Accepted: 07/17/2019] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Our laboratory has constructed a Bacillus licheniformis strain that secretes alkaline protease (AprE) with excellent enzymatic properties. B. licheniformis is generally regarded as safe and has a high industrial exoenzyme secretion capacity, but the host retains some undomesticated characteristic that increase its competitiveness and survival, such as spore-formation, which increases the requirements and difficulties in industrial operations (e.g. sterilization and enzyme activity control). Furthermore, the influence of sporulation on alkaline protease production in B. licheniformis has not been elucidated in detail. RESULT A series of asporogenic variants of the parent strain were constructed by individually knocking out the master regulator genes (spo0A, sigF and sigE) involved in sporulation. Most of the variants formed abortively disporic cells characterized by asymmetric septa at the poles and unable to survive incubation at 75 °C for 10 min. Two of them (ΔsigF and ΔsigE) exhibited superior characteristics in protease production, especially improving the expression of the aprE gene. Under the currently used fermentation conditions, the vegetative production phase of ΔsigF can be prolonged to 72 h, and the highest protease production of ΔsigF reached 29,494 ± 1053 U/mL, which was about 19.7% higher than that of the wild-type strain. CONCLUSION We first constructed three key sporulation-deficient strain to investigate the effect of sporulation on alkaline protease synthesis. The sigF mutant retained important industrial properties such as facilitating the sterilization process, a prolonged stable phase of enzyme production and slower decreasing trend, which will be superior in energy conservation, simpler operations and target product controlling effect. In summary, the work provides a useful industrial host with preferable characteristics and a novel strategy to enhance the production of protease.
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Affiliation(s)
- Cuixia Zhou
- Key Laboratory of Industrial Fermentation Microbiology, Ministry of Education, College of Biotechnology, Tianjin University of Science & Technology, No. 29, 13th Road, Tianjin Economic-Technological Development Area, Tianjin 022, 300457, People's Republic of China
| | - Huiying Zhou
- Key Laboratory of Industrial Fermentation Microbiology, Ministry of Education, College of Biotechnology, Tianjin University of Science & Technology, No. 29, 13th Road, Tianjin Economic-Technological Development Area, Tianjin 022, 300457, People's Republic of China
| | - Huitu Zhang
- Key Laboratory of Industrial Fermentation Microbiology, Ministry of Education, College of Biotechnology, Tianjin University of Science & Technology, No. 29, 13th Road, Tianjin Economic-Technological Development Area, Tianjin 022, 300457, People's Republic of China.
| | - Fuping Lu
- Key Laboratory of Industrial Fermentation Microbiology, Ministry of Education, College of Biotechnology, Tianjin University of Science & Technology, No. 29, 13th Road, Tianjin Economic-Technological Development Area, Tianjin 022, 300457, People's Republic of China.
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Fernández‐Cabezón L, Cros A, Nikel PI. Evolutionary Approaches for Engineering Industrially Relevant Phenotypes in Bacterial Cell Factories. Biotechnol J 2019; 14:e1800439. [DOI: 10.1002/biot.201800439] [Citation(s) in RCA: 31] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2019] [Revised: 04/08/2019] [Indexed: 12/12/2022]
Affiliation(s)
- Lorena Fernández‐Cabezón
- The Novo Nordisk Foundation Center for BiosustainabilityTechnical University of Denmark 2800 Kongens Lyngby Denmark
| | - Antonin Cros
- The Novo Nordisk Foundation Center for BiosustainabilityTechnical University of Denmark 2800 Kongens Lyngby Denmark
| | - Pablo I. Nikel
- The Novo Nordisk Foundation Center for BiosustainabilityTechnical University of Denmark 2800 Kongens Lyngby Denmark
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Eßbach C, Senkovska I, Unmüssig T, Fischer A, Kaskel S. Selective Alcohol Electrooxidation by ZIF-8 Functionalized Pt/Carbon Catalyst. ACS APPLIED MATERIALS & INTERFACES 2019; 11:20915-20922. [PMID: 31117471 DOI: 10.1021/acsami.9b06122] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Highly selective electrooxidation catalysts were synthesized by functionalizing a commercially available reference electrooxidation catalyst (Pt/Vulcan XC 72R) with a coating of the highly hydrophobic porous zeolitic imidazolate framework ZIF-8, an adsorbent with high affinity for the extraction of aliphatic alcohols from water. According to cyclovoltammetric studies in alkaline media at 25 °C, the ZIF-8 functionalized catalyst shows a high selectivity for the electrooxidation of small alcohols such as ethanol and methanol over more hydrophobic alcohols ( n-butanol, n-propanol). In contrast, the noncoated reference catalyst (Pt/Vulcan XC 72R) oxidizes all investigated alcohols with comparable current densities. Tafel curves confirm these observations and indicate a limited conversion of long chain alcohols, especially n-butanol, caused by the high affinity of the ZIF-8 for this molecule resulting in significant diffusion limitations.
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Affiliation(s)
- Claudia Eßbach
- Technische Universität Dresden , Bergstraße 66 , 01062 Dresden , Germany
| | - Irena Senkovska
- Technische Universität Dresden , Bergstraße 66 , 01062 Dresden , Germany
| | - Tobias Unmüssig
- Institut für Anorganische und Analytische Chemie, Fakultät für Chemie und Pharmazie , Albert-Ludwigs-Universität Freiburg , Albertstraße 21 , 79104 Freiburg , Germany
- Freiburg Material Research Center , Albert-Ludwigs-Universität Freiburg , Stefan-Meier-Straße 21 , 79104 Freiburg , Germany
| | - Anna Fischer
- Institut für Anorganische und Analytische Chemie, Fakultät für Chemie und Pharmazie , Albert-Ludwigs-Universität Freiburg , Albertstraße 21 , 79104 Freiburg , Germany
- Freiburg Material Research Center , Albert-Ludwigs-Universität Freiburg , Stefan-Meier-Straße 21 , 79104 Freiburg , Germany
- Freiburg Center for Interactive Materials and Bioinspired Technologies , Albert-Ludwigs-Universität Freiburg , Georges-Köhler-Allee 105 , 79110 Freiburg , Germany
| | - Stefan Kaskel
- Technische Universität Dresden , Bergstraße 66 , 01062 Dresden , Germany
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Yu L, Wu F, Chen G. Next‐Generation Industrial Biotechnology‐Transforming the Current Industrial Biotechnology into Competitive Processes. Biotechnol J 2019; 14:e1800437. [DOI: 10.1002/biot.201800437] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2018] [Revised: 02/01/2019] [Indexed: 01/16/2023]
Affiliation(s)
- Lin‐Ping Yu
- Ministry of Education Key Laboratory for Bioinformatics, School of Life SciencesTsinghua University New Biology Building 100084 Beijing China
- Center for Synthetic and Systems BiologyTsinghua University New Biology Building 100084 Beijing China
- Tsinghua‐Peking Center for Life SciencesTsinghua University New Biology Building 100084 Beijing China
| | - Fu‐Qing Wu
- Ministry of Education Key Laboratory for Bioinformatics, School of Life SciencesTsinghua University New Biology Building 100084 Beijing China
- Center for Synthetic and Systems BiologyTsinghua University New Biology Building 100084 Beijing China
- Tsinghua‐Peking Center for Life SciencesTsinghua University New Biology Building 100084 Beijing China
| | - Guo‐Qiang Chen
- Ministry of Education Key Laboratory for Bioinformatics, School of Life SciencesTsinghua University New Biology Building 100084 Beijing China
- Center for Synthetic and Systems BiologyTsinghua University New Biology Building 100084 Beijing China
- Tsinghua‐Peking Center for Life SciencesTsinghua University New Biology Building 100084 Beijing China
- Manchester Institute of Biotechnology, Centre for Synthetic BiologyThe University of Manchester 131 Princess Street Manchester M1 7DN UK
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36
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A review on the current developments in continuous lactic acid fermentations and case studies utilising inexpensive raw materials. Process Biochem 2019. [DOI: 10.1016/j.procbio.2018.12.012] [Citation(s) in RCA: 62] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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37
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Chromosome engineering of the TCA cycle in Halomonas bluephagenesis for production of copolymers of 3-hydroxybutyrate and 3-hydroxyvalerate (PHBV). Metab Eng 2019; 54:69-82. [PMID: 30914380 DOI: 10.1016/j.ymben.2019.03.006] [Citation(s) in RCA: 48] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2019] [Revised: 03/12/2019] [Accepted: 03/16/2019] [Indexed: 01/08/2023]
Abstract
Poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV) is a promising biopolyester with good mechanical properties and biodegradability. Large-scale production of PHBV is still hindered by the high production cost. CRISPR/Cas9 method was used to engineer the TCA cycle in Halomonas bluephagenesis on its chromosome for production of PHBV from glucose as a sole carbon source. Two TCA cycle related genes sdhE and icl encoding succinate dehydrogenase assembly factor 2 and isocitrate lysase were deleted, respectively, in H. bluephagenesis TD08AB containing PHBV synthesis genes on the chromosome, to channel more flux to increase the 3-hydroxyvalerate (3HV) ratio of PHBV. Due to a poor growth behavior of the mutant strains, H. bluephagenesis TY194 equipped with a medium strength Pporin-194 promoter was selected for further studies. The sdhE and/or icl mutant strains of H. bluephagenesis TY194 were constructed to show enhanced cell growth, PHBV synthesis and 3HV molar ratio. Gluconate was used to activate ED pathway and thus TCA cycle to increase 3HV content. H. bluephagenesis TY194 (ΔsdhEΔicl) was found to synthesize 17mol% 3HV in PHBV. Supported by the synergetic function of phosphoenolpyruvate carboxylase and Vitreoscilla hemoglobin encoded by genes ppc and vgb inserted into the chromosome of H. bluephagenesis TY194 (ΔsdhE) serving to enhance TCA cycle activity, a series of strains were generated that could produce PHBV containing 3-18mol% 3HV using glucose as a sole carbon source. Shake flask studies showed that H. bluephagenesis TY194 (ΔsdhE, G7::Pporin-ppc) produced 6.3 g/L cell dry weight (CDW), 65% PHBV in CDW and 25mol% 3HV in PHBV when grown in glucose and gluconate. 25mol% 3HV was the highest reported via chromosomal expression system. PHBV copolymers with different 3HV molar ratios were extracted and characterized. Next-generation industrial biotechnology (NGIB) based on recombinant H. bluephagenesis grown under unsterile and continuous conditions, allows production of P(3HB-0∼25mol% 3HV) in a convenient way with reduced production complexity and cost.
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Blunt W, Levin DB, Cicek N. Bioreactor Operating Strategies for Improved Polyhydroxyalkanoate (PHA) Productivity. Polymers (Basel) 2018; 10:polym10111197. [PMID: 30961122 PMCID: PMC6290639 DOI: 10.3390/polym10111197] [Citation(s) in RCA: 43] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2018] [Revised: 10/22/2018] [Accepted: 10/23/2018] [Indexed: 12/02/2022] Open
Abstract
Microbial polyhydroxyalkanoates (PHAs) are promising biodegradable polymers that may alleviate some of the environmental burden of petroleum-derived polymers. The requirements for carbon substrates and energy for bioreactor operations are major factors contributing to the high production costs and environmental impact of PHAs. Improving the process productivity is an important aspect of cost reduction, which has been attempted using a variety of fed-batch, continuous, and semi-continuous bioreactor systems, with variable results. The purpose of this review is to summarize the bioreactor operations targeting high PHA productivity using pure cultures. The highest volumetric PHA productivity was reported more than 20 years ago for poly(3-hydroxybutryate) (PHB) production from sucrose (5.1 g L−1 h−1). In the time since, similar results have not been achieved on a scale of more than 100 L. More recently, a number fed-batch and semi-continuous (cyclic) bioreactor operation strategies have reported reasonably high productivities (1 g L−1 h−1 to 2 g L−1 h−1) under more realistic conditions for pilot or industrial-scale production, including the utilization of lower-cost waste carbon substrates and atmospheric air as the aeration medium, as well as cultivation under non-sterile conditions. Little development has occurred in the area of fully continuously fed bioreactor systems over the last eight years.
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Affiliation(s)
- Warren Blunt
- Department of Biosystems Engineering, University of Manitoba, Winnipeg, MB R3T 5V6, Canada.
| | - David B Levin
- Department of Biosystems Engineering, University of Manitoba, Winnipeg, MB R3T 5V6, Canada.
| | - Nazim Cicek
- Department of Biosystems Engineering, University of Manitoba, Winnipeg, MB R3T 5V6, Canada.
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Stability and oscillatory behavior of microbial consortium in continuous conversion of crude glycerol to 1,3-propanediol. Appl Microbiol Biotechnol 2018; 102:8291-8305. [DOI: 10.1007/s00253-018-9244-6] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2018] [Revised: 06/29/2018] [Accepted: 07/13/2018] [Indexed: 10/28/2022]
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40
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Reprogramming Halomonas for industrial production of chemicals. J Ind Microbiol Biotechnol 2018; 45:545-554. [PMID: 29948194 DOI: 10.1007/s10295-018-2055-z] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2018] [Accepted: 05/31/2018] [Indexed: 12/26/2022]
Abstract
Halomonas spp. are able to grow under a high salt concentration at alkali pH, they are able to resist contamination by other microbes. Development of Halomonas spp. as platform production strains for the next-generation industrial biotechnology (NGIB) is intensively studied. Among Halomonas spp., Halomonas bluephagenesis is the best studied one with available engineering tools and methods to reprogram it for production of various polyhydroxyalkanoates, proteins, and chemicals. Due to its contamination resistance, H. bluephagenesis can be grown under open and continuous processes not just in the labs but also in at least 1000 L fermentor scale. It is expected that NGIB based on Halomonas spp. be able to engineer for production of increasing number of products in a competitive manner.
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Next generation industrial biotechnology based on extremophilic bacteria. Curr Opin Biotechnol 2018; 50:94-100. [DOI: 10.1016/j.copbio.2017.11.016] [Citation(s) in RCA: 186] [Impact Index Per Article: 31.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2017] [Revised: 11/24/2017] [Accepted: 11/27/2017] [Indexed: 01/13/2023]
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Zhao L, Ye J, Fu J, Chen GQ. Engineering peptidoglycan degradation related genes of Bacillus subtilis for better fermentation processes. BIORESOURCE TECHNOLOGY 2018; 248:238-247. [PMID: 28811162 DOI: 10.1016/j.biortech.2017.05.134] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2017] [Revised: 05/19/2017] [Accepted: 05/21/2017] [Indexed: 06/07/2023]
Abstract
In this study, Bacillus subtilis 168 Δupp was engineered to change the bacterial shapes. Namely, some peptidoglycan hydrolase related genes were inactivated individually or in different combinations, including sigD, lytE, lytF, lytC, lytD and lytG. Inactivations of these genes resulted in various intensities of blockages on cell division, leading to elongation of bacterial cells. The resulted fiber phenotypes showed different lengths ranging from tens of microns to several millimeters. Mutants with multiple gene inactivations such as ΔsigDΔlytEΔlytD showed more easily precipitated phenomenon, obviously increased growth rate, more sensitive to antibiotics and improved α-amylase production compared with that of B. subtilis 168 Δupp. Mutants ΔsigDΔlytEΔlytD and ΔsigDΔlytEΔlytCΔlytD also showed an increased tolerance to high osmotic pressure of sodium chloride, allowing unsterile fermentation, all of which contributes to reduced processing cost.
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Affiliation(s)
- Liang Zhao
- Peking-Tsinghua Center for Life Sciences, School of Life Science, Tsinghua University, Beijing 100084, China; Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100081, China
| | - Jianwen Ye
- MOE Key Lab of Industrial Biocatalysis, Tsinghua University, Beijing 100081, China
| | - Jing Fu
- Key Laboratory of Systems Bioengineering (Ministry of Education), SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Guo-Qiang Chen
- Peking-Tsinghua Center for Life Sciences, School of Life Science, Tsinghua University, Beijing 100084, China; Center for Synthetic and Systems Biology, Tsinghua University, Beijing 100084, China; MOE Key Lab of Industrial Biocatalysis, Tsinghua University, Beijing 100081, China.
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43
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Ouyang P, Wang H, Hajnal I, Wu Q, Guo Y, Chen GQ. Increasing oxygen availability for improving poly(3-hydroxybutyrate) production by Halomonas. Metab Eng 2018; 45:20-31. [DOI: 10.1016/j.ymben.2017.11.006] [Citation(s) in RCA: 38] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2017] [Revised: 11/09/2017] [Accepted: 11/12/2017] [Indexed: 01/01/2023]
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44
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Chen GQ, Jiang XR. Engineering microorganisms for improving polyhydroxyalkanoate biosynthesis. Curr Opin Biotechnol 2017; 53:20-25. [PMID: 29169056 DOI: 10.1016/j.copbio.2017.10.008] [Citation(s) in RCA: 59] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2017] [Revised: 10/27/2017] [Accepted: 10/30/2017] [Indexed: 01/22/2023]
Abstract
Biosynthesis of polyhydroxyalkanoates (PHA) has been studied since the 1920s. The biosynthesis pathways have been well understood and various attempts have been made to improve the PHA biosynthesis efficiency. Recent progresses have been focused on systematic improvements on PHA biosynthesis including changing growth pattern for rapid proliferation, engineering to enlarge cell sizes for more PHA accumulation space, reprogramming the PHA synthesis pathways using optimized RBS and promoter, redirecting metabolic flux to PHA synthesis using CRISPR/Cas9 tools, and very importantly, the employment of non-traditional host such as halophiles for reduced complexity on PHA production. All of the efforts should lead to ultrahigh PHA accumulation, controllable PHA compositions and molecular weights, open and continuous PHA production with gravity separation processes, resulting in competitive PHA production cost.
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Affiliation(s)
- Guo-Qiang Chen
- MOE Lab of Bioinformatics, School of Life Sciences, Tsinghua University, Beijing 100084, China; Center for Synthetic and Systems Biology, Tsinghua University, Beijing 100084, China; Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing 100084, China; Manchester Institute of Biotechnology, Centre for Synthetic Biology, The University of Manchester, 131 Princess Street, Manchester M1 7DN, UK.
| | - Xiao-Ran Jiang
- MOE Lab of Bioinformatics, School of Life Sciences, Tsinghua University, Beijing 100084, China; Center for Synthetic and Systems Biology, Tsinghua University, Beijing 100084, China; Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing 100084, China
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45
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Engineering bacteria for enhanced polyhydroxyalkanoates (PHA) biosynthesis. Synth Syst Biotechnol 2017; 2:192-197. [PMID: 29318199 PMCID: PMC5655382 DOI: 10.1016/j.synbio.2017.09.001] [Citation(s) in RCA: 61] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2017] [Revised: 09/16/2017] [Accepted: 09/16/2017] [Indexed: 11/24/2022] Open
Abstract
Polyhydroxyalkanoates (PHA) have been produced by some bacteria as bioplastics for many years. Yet their commercialization is still on the way. A few issues are related to the difficulty of PHA commercialization: namely, high cost and instabilities on molecular weights (Mw) and structures, thus instability on thermo-mechanical properties. The high cost is the result of complicated bioprocessing associated with sterilization, low conversion of carbon substrates to PHA products, and slow growth of microorganisms as well as difficulty of downstream separation. Future engineering on PHA producing microorganisms should be focused on contamination resistant bacteria especially extremophiles, developments of engineering approaches for the extremophiles, increase on carbon substrates to PHA conversion and controlling Mw of PHA. The concept proof studies could still be conducted on E. coli or Pseudomonas spp. that are easily used for molecular manipulations. In this review, we will use E. coli and halophiles as examples to show how to engineer bacteria for enhanced PHA biosynthesis and for increasing PHA competitiveness.
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46
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Chen Z, Wan C. Non-sterile fermentations for the economical biochemical conversion of renewable feedstocks. Biotechnol Lett 2017; 39:1765-1777. [PMID: 28905262 DOI: 10.1007/s10529-017-2429-8] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2017] [Accepted: 08/31/2017] [Indexed: 01/17/2023]
Abstract
Heavy reliance on petroleum-based products drives continuous exploitation of fossil fuels, and results in serious environmental and climate problems. To address such an issue, there is a shift from petroleum sources to renewable ones. Biochemical conversion via fermentation is a primary platform for converting renewable sources to biofuels and bulk chemicals. In order to provide cost-competitive alternatives, it is imperative to develop efficient, cost-saving, and robust fermentation processes. Non-sterile fermentation offers several benefits compared to sterile fermentation, including elimination of sterility, reduced maintenance requirements, relatively simple bioreactor design, and simplified operation. Thus, cost effectiveness of non-sterile fermentation makes it a practical platform for low cost, large volume production of biofuels and bulk chemicals. Many approaches have been developed to conduct non-sterile fermentation without sacrificing the yields and productivities of fermentation products. This review focuses on the strategies for conducting non-sterile fermentation. The challenges facing non-sterile fermentation are also discussed.
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Affiliation(s)
- Zhu Chen
- Department of Bioengineering, University of Missouri, Columbia, MO, 65211, USA
| | - Caixia Wan
- Department of Bioengineering, University of Missouri, Columbia, MO, 65211, USA.
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47
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Comprehensive assessment of the l-lysine production process from fermentation of sugarcane molasses. Bioprocess Biosyst Eng 2017; 40:1033-1048. [DOI: 10.1007/s00449-017-1766-2] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2016] [Accepted: 04/05/2017] [Indexed: 10/19/2022]
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48
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Novel T7-like expression systems used for Halomonas. Metab Eng 2017; 39:128-140. [DOI: 10.1016/j.ymben.2016.11.007] [Citation(s) in RCA: 71] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2016] [Revised: 10/21/2016] [Accepted: 11/21/2016] [Indexed: 12/27/2022]
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49
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Li T, Ye J, Shen R, Zong Y, Zhao X, Lou C, Chen GQ. Semirational Approach for Ultrahigh Poly(3-hydroxybutyrate) Accumulation in Escherichia coli by Combining One-Step Library Construction and High-Throughput Screening. ACS Synth Biol 2016; 5:1308-1317. [PMID: 27133230 DOI: 10.1021/acssynbio.6b00083] [Citation(s) in RCA: 51] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
As a product of a multistep enzymatic reaction, accumulation of poly(3-hydroxybutyrate) (PHB) in Escherichia coli (E. coli) can be achieved by overexpression of the PHB synthesis pathway from a native producer involving three genes phbC, phbA, and phbB. Pathway optimization by adjusting expression levels of the three genes can influence properties of the final product. Here, we reported a semirational approach for highly efficient PHB pathway optimization in E. coli based on a phbCAB operon cloned from the native producer Ralstonia entropha (R. entropha). Rationally designed ribosomal binding site (RBS) libraries with defined strengths for each of the three genes were constructed based on high or low copy number plasmids in a one-pot reaction by an oligo-linker mediated assembly (OLMA) method. Strains with desired properties were evaluated and selected by three different methodologies, including visual selection, high-throughput screening, and detailed in-depth analysis. Applying this approach, strains accumulating 0%-92% PHB contents in cell dry weight (CDW) were achieved. PHB with various weight-average molecular weights (Mw) of 2.7-6.8 × 106 were also efficiently produced in relatively high contents. These results suggest that the semirational approach combining library design, construction, and proper screening is an efficient way to optimize PHB and other multienzyme pathways.
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Affiliation(s)
- Teng Li
- MOE
Key Lab of Bioinformatics, Department of Biological Science and Biotechnology,
School of Life Science, Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing 100084, China
| | - Jianwen Ye
- MOE
Key Lab of Bioinformatics, Department of Biological Science and Biotechnology,
School of Life Science, Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing 100084, China
| | - Rui Shen
- MOE
Key Lab of Bioinformatics, Department of Biological Science and Biotechnology,
School of Life Science, Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing 100084, China
| | - Yeqing Zong
- Key
Laboratory of Microbial Physiological and Metabolic Engineering, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - Xuejin Zhao
- Key
Laboratory of Microbial Physiological and Metabolic Engineering, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - Chunbo Lou
- Key
Laboratory of Microbial Physiological and Metabolic Engineering, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - Guo-Qiang Chen
- MOE
Key Lab of Bioinformatics, Department of Biological Science and Biotechnology,
School of Life Science, Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing 100084, China
- Center
for Synthetic and Systems Biology, Tsinghua University, Beijing 100084, China
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50
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Chen GQ, Jiang XR, Guo Y. Synthetic biology of microbes synthesizing polyhydroxyalkanoates (PHA). Synth Syst Biotechnol 2016; 1:236-242. [PMID: 29062949 PMCID: PMC5625728 DOI: 10.1016/j.synbio.2016.09.006] [Citation(s) in RCA: 49] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2016] [Revised: 09/22/2016] [Accepted: 09/30/2016] [Indexed: 11/25/2022] Open
Abstract
Microbial polyhydroxyalkanoates (PHA) have been produced as bioplastics for various purposes. Under the support of China National Basic Research 973 Project, we developed synthetic biology methods to diversify the PHA structures into homo-, random, block polymers with improved properties to better meet various application requirements. At the same time, various pathways were assembled to produce various PHA from glucose as a simple carbon source. At the end, Halomonas bacteria were reconstructed to produce PHA in changing morphology for low cost production under unsterile and continuous conditions. The synthetic biology will advance the PHA into a bio- and material industry.
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Affiliation(s)
- Guo-Qiang Chen
- School of Life Sciences, Tsinghua University, Beijing 100084, China.,Center for Synthetic and Systems Biology, Tsinghua University, Beijing 100084, China.,Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing 100084, China.,Center for Nano and Micro Mechanics, Tsinghua University, Beijing 100084, China.,MOE Key Lab of Industrial Biocatalysis, Dept Chemical Engineering, Tsinghua University, Beijing 100084, China
| | - Xiao-Ran Jiang
- School of Life Sciences, Tsinghua University, Beijing 100084, China.,Center for Synthetic and Systems Biology, Tsinghua University, Beijing 100084, China.,Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing 100084, China
| | - Yingying Guo
- School of Life Sciences, Tsinghua University, Beijing 100084, China.,Center for Synthetic and Systems Biology, Tsinghua University, Beijing 100084, China.,Tsinghua-Peking Center for Life Sciences, Tsinghua University, Beijing 100084, China
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