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1.
Metab Eng ; 81: 70-87, 2024 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-38040110

RESUMO

The remarkable metabolic diversity observed in nature has provided a foundation for sustainable production of a wide array of valuable molecules. However, transferring the biosynthetic pathway to the desired host often runs into inherent failures that arise from intermediate accumulation and reduced flux resulting from competing pathways within the host cell. Moreover, the conventional trial and error methods utilized in pathway optimization struggle to fully grasp the intricacies of installed pathways, leading to time-consuming and labor-intensive experiments, ultimately resulting in suboptimal yields. Considering these obstacles, there is a pressing need to explore the enzyme expression landscape and identify the optimal pathway configuration for enhanced production of molecules. This review delves into recent advancements in pathway engineering, with a focus on multiplex experimentation and machine learning techniques. These approaches play a pivotal role in overcoming the limitations of traditional methods, enabling exploration of a broader design space and increasing the likelihood of discovering optimal pathway configurations for enhanced production of molecules. We discuss several tools and strategies for pathway design, construction, and optimization for sustainable and cost-effective microbial production of molecules ranging from bulk to fine chemicals. We also highlight major successes in academia and industry through compelling case studies.


Assuntos
Vias Biossintéticas , Aprendizado de Máquina , Engenharia Metabólica/métodos
2.
J Nutr ; 154(8): 2599-2607, 2024 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-38914228

RESUMO

BACKGROUND: Although reducing meat consumption is becoming increasingly popular in Western countries, such a transition to a sustainable diet may pose some nutritional risks. OBJECTIVES: We aim to analyze the pathways for reaching a low-meat healthy diet and the changes in other food categories needed to rapidly decrease total red meat consumption. METHODS: We used a recently developed method based on graph theory to represent all possible pathways of stepwise changes that avoid nutritional deficiencies toward a target healthy diet. Initial and target diets were defined as the daily consumption of 33 food groups. For each sex, 3 initial diets were taken from the French representative survey third individual and national study on food consumption survey as the mean observed diet and low (first quintile) and high (fifth quintile) meat consumption. Target diets were identified using multicriteria optimization to minimize the long-term health risk (HR) of chronic diseases while ensuring nutritional adequacy. The Dijkstra algorithm was used to identify the optimal pathways between the initial and target diets, with the aim of reducing meat consumption as quickly as possible and thus minimizing long-term HRs. RESULTS: Unprocessed red meat was easily minimized in the first steps of the pathways regardless of sex and initial level of meat consumption. However, processed meat could only be decreased later and required prior changes such as increases in fruit, vegetables, and oily fish. During total red meat minimization in females, securing adequate intakes of bioavailable iron had the most substantial impact on the other dietary changes needed. CONCLUSIONS: Immediate reduction of red meat consumption is possible on the pathway to a healthy diet that avoids any nutrient deficiency. However, early increases in fruit, vegetables, and fish are required before minimizing total red meat early in the diet.


Assuntos
Dieta , Carne Vermelha , Humanos , Masculino , Feminino , Dieta Saudável , Adulto , França
3.
Microb Cell Fact ; 23(1): 249, 2024 Sep 13.
Artigo em Inglês | MEDLINE | ID: mdl-39272067

RESUMO

BACKGROUND: Engineering bacteria with the purpose of optimizing the production of interesting molecules often leads to a decrease in growth due to metabolic burden or toxicity. By delaying the production in time, these negative effects on the growth can be avoided in a process called a two-stage fermentation. MAIN TEXT: During this two-stage fermentation process, the production stage is only activated once sufficient cell mass is obtained. Besides the possibility of using external triggers, such as chemical molecules or changing fermentation parameters to induce the production stage, there is a renewed interest towards autoinducible systems. These systems, such as quorum sensing, do not require the extra interference with the fermentation broth to start the induction. In this review, we discuss the different possibilities of both external and autoinduction methods to obtain a two-stage fermentation. Additionally, an overview is given of the tuning methods that can be applied to optimize the induction process. Finally, future challenges and prospects of (auto)inducible expression systems are discussed. CONCLUSION: There are numerous methods to obtain a two-stage fermentation process each with their own advantages and disadvantages. Even though chemically inducible expression systems are well-established, an increasing interest is going towards autoinducible expression systems, such as quorum sensing. Although these newer techniques cannot rely on the decades of characterization and applications as is the case for chemically inducible promoters, their advantages might lead to a shift in future inducible expression systems.


Assuntos
Fermentação , Percepção de Quorum , Bactérias/metabolismo , Bactérias/genética , Engenharia Metabólica/métodos , Regulação Bacteriana da Expressão Gênica , Regiões Promotoras Genéticas
4.
Biotechnol Lett ; 2024 Jul 20.
Artigo em Inglês | MEDLINE | ID: mdl-39031272

RESUMO

OBJECTIVES: Developing a simplified flask fermentation strategy utilizing magnetotactic bacterium AMB-1 and optimized iron supplementation for high-yield magnetosome production to address the challenges associated with magnetosome acquisition. RESULTS: A reliable processing for the pure culture of AMB-1 was established using standard laboratory consumables and equipment. Subsequently, the medium and iron supplementation were optimized to enhance the yield of AMB-1 magnetosomes. The mSLM supported higher biomass accumulation in flask fermentation, reaching an OD565 of ~ 0.7. The premixed solution of ferric quinate and EDTA-Fe (at a ratio of 0.5:0.5 and a concentration of 0.4 mmol/L) stabilized Fe3+ and significantly increased the reductase activity of AMB-1. Flask fermentations with an initial volume of 15 L were then conducted employing the optimized fermentation strategy. After two rounds of iron and nutrient supplementation, the magnetosome yield reached 185.7 ± 9.5 mg/batch (approximately 12 mg/L), representing the highest AMB-1 flask fermentation yield to our knowledge. CONCLUSION: A flask fermentation strategy for high-yield magnetsome production was developed, eliminating the need for bioreactors and greatly simplifying the process of magnetosome acquisition.

5.
J Environ Sci (China) ; 123: 510-521, 2023 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-36522010

RESUMO

Air pollution control policies in China have been experiencing profound changes, highlighting a strategic transformation from total pollutant emission control to air quality improvement, along with the shifting targets starting from acid rain and NOx emissions to PM2.5 pollution, and then the emerging O3 challenges. The marvelous achievements have been made with the dramatic decrease of SO2 emission and fundamental improvement of PM2.5 concentration. Despite these achievements, China has proposed Beautiful China target through 2035 and the goal of 2030 carbon peak and 2060 carbon neutrality, which impose stricter requirements on air quality and synergistic mitigation with Greenhouse Gas (GHG) emissions. Against this background, an integrated multi-objective and multi-benefit roadmap is required to provide decision support for China's long-term air quality improvement strategy. This paper systematically reviews the technical system for developing the air quality improvement roadmap, which was integrated from the research output of China's National Key R&D Program for Research on Atmospheric Pollution Factors and Control Technologies (hereafter Special NKP), covering mid- and long-term air quality target setting techniques, quantitative analysis techniques for emission reduction targets corresponding to air quality targets, and pathway optimization techniques for realizing reduction targets. The experience and lessons derived from the reviews have implications for the reformation of China's air quality improvement roadmap in facing challenges of synergistic mitigation of PM2.5 and O3, and the coupling with climate change mitigation.


Assuntos
Poluentes Atmosféricos , Poluição do Ar , Poluentes Atmosféricos/análise , Material Particulado/análise , Desenvolvimento Industrial , Melhoria de Qualidade , Poluição do Ar/prevenção & controle , Poluição do Ar/análise , Carbono/análise , China
6.
Microb Cell Fact ; 21(1): 275, 2022 Dec 28.
Artigo em Inglês | MEDLINE | ID: mdl-36577997

RESUMO

BACKGROUND: Itaconic acid, an unsaturated C5 dicarbonic acid, has significant market demand and prospects. It has numerous biological functions, such as anti-cancer, anti-inflammatory, and anti-oxidative in medicine, and is an essential renewable platform chemical in industry. However, the development of industrial itaconic acid production by Aspergillus terreus, the current standard production strain, is hampered by the unavoidable drawbacks of that species. Developing a highly efficient cell factory is essential for the sustainable and green production of itaconic acid. RESULTS: This study employed combinatorial engineering strategies to construct Escherichia coli cells to produce itaconic acid efficiently. Two essential genes (cis-aconitate decarboxylase (CAD) encoding gene cadA and aconitase (ACO) encoding gene acn) employed various genetic constructs and plasmid combinations to create 12 recombination E. coli strains to be screened. Among them, E. coli BL-CAC exhibited the highest titer with citrate as substrate, and the induction and reaction conditions were further systematically optimized. Subsequently, employing enzyme evolution to optimize rate-limiting enzyme CAD and synthesizing protein scaffolds to co-localize ACO and CAD were used to improve itaconic acid biosynthesis efficiency. Under the optimized reaction conditions combined with the feeding control strategy, itaconic acid titer reached 398.07 mM (51.79 g/L) of engineered E. coli BL-CAR470E-DS/A-CS cells as a catalyst with the highest specific production of 9.42 g/g(DCW) among heterologous hosts at 48 h. CONCLUSIONS: The excellent catalytic performance per unit biomass shows the potential for high-efficiency production of itaconic acid and effective reduction of catalytic cell consumption. This study indicates that it is necessary to continuously explore engineering strategies to develop high-performance cell factories to break through the existing bottleneck and achieve the economical commercial production of itaconic acid.


Assuntos
Escherichia coli , Engenharia Metabólica , Escherichia coli/genética , Escherichia coli/metabolismo , Succinatos/metabolismo , Aconitato Hidratase/metabolismo
7.
Metab Eng ; 67: 403-416, 2021 09.
Artigo em Inglês | MEDLINE | ID: mdl-34411702

RESUMO

Malonyl-CoA is an important building block for microbial synthesis of numerous pharmaceutically interesting or fatty acid-derived compounds including polyketides, flavonoids, phenylpropanoids and fatty acids. However, the tightly regulated intracellular malonyl-CoA availability often impedes overall product formation. Here, in order to unleash this tightly cellular behavior, we present evolution: dual dynamic regulations-based approaches to write artificial robust and dynamic function into intricate cellular background. Firstly, a conserved core domain based evolutionary principles were incorporated into genome mining to explore the biosynthetic diversities of discrete acetyl-CoA carboxylase (ACC) families, as malonyl-CoA is solely derived from carboxylation of acetyl-CoA by ACC in most organisms. A comprehensive phylogenomic and further experimental analysis, which included genomes of 50 strains throughout representative species, was performed to recapitulate the evolutionary history and reveal that previously unnoticed ACC families from Salmonella enterica exhibited the highest activities among all the candidates. A set of orthogonal and bi-functional quorum-sensing (QS)-based regulation tools were further designed and connected with T7 RNA polymerase as genetic amplifier to achieve dual dynamic control in a high dynamic range, which allowed us to efficiently activate and repress different sets of genes dynamically and independently. These genetic circuits were then combined with ACC of S. enterica and CRISPRi system to reprogram central metabolism that rewired the tightly regulated malonyl-CoA pathway to a robust and autonomous behavior, leading to a 29-fold increase of malony-CoA availability. We applied this dual regulation tool to successfully synthesizing malonyl-CoA-derived compound (2S)-naringenin, and achieved the highest production (1073.8 mg/L) reported to date associate with dramatic decreases of by-product formation. Notably, the whole fermentation presents as an autonomous behavior, totally eliminating human supervision and inducer supplementation. Hence, the constructed evolution: dual dynamic regulations-based approaches pave the way to develop an economically viable and scalable procedure for microbial production of malonyl-CoA derived compounds.


Assuntos
Malonil Coenzima A , Policetídeos , Acetilcoenzima A/genética , Acetil-CoA Carboxilase , Engenharia Metabólica
8.
Metab Eng ; 54: 212-221, 2019 07.
Artigo em Inglês | MEDLINE | ID: mdl-31028901

RESUMO

The anthraquinones endocrocin and emodin are synthesized by a special class of type I NR-PKSs and a discrete MßL-TE. In this work, we first reconstituted a biosynthetic pathway of endocrocin and emodin in S. cerevisiae by combining enzymes from different sources. We functionally characterized a TE-less NR-PKS (SlACAS) and a MßL-TE (SlTE) from S. lycopersici as well as four orthologous MßL-TEs. SlACAS was coexpressed with different MßL-TEs in S. cerevisiae. SlACAS generated the highest amount of endocrocin when coupled with HyTE, the yield was 115.6% higher than that with the native SlTE. To accumulate more emodin, seven decarboxylases with high homology to HyDC were identified and introduced into the biosynthetic pathway. Among these orthologs, AfDC exhibited the highest catalytic activity and the conversion rate reached 98.6%. A double-point mutant acetyl-CoA carboxylase, ACC1S659A, S1157A, was further introduced to increase the production of malonyl-CoA as a precursor of these anthraquinones. The production of endocrocin (233.6 ±â€¯20.3 mg/L) and emodin (253.2 ±â€¯21.7 mg/L) then dramatically increased. We also optimized the carbon source in the medium and conducted fed-batch fermentation with the engineered strains. The titers of endocrocin and emodin obtained were 661.2 ±â€¯50.5 mg/L and 528.4 ±â€¯62.7 mg/L, respectively, which are higher than previously reported. In this work, by screening a small library of orthologous biosynthetic bricks, an efficient biosynthetic pathway of endocrocin and emodin was first created in S. cerevisiae. This study provides a novel metabolic engineering approach for optimization of the production of desired molecules.


Assuntos
Emodina/metabolismo , Engenharia Metabólica , Microrganismos Geneticamente Modificados , Saccharomyces cerevisiae , Antracenos/metabolismo , Técnicas de Cultura Celular por Lotes , Microrganismos Geneticamente Modificados/genética , Microrganismos Geneticamente Modificados/crescimento & desenvolvimento , Saccharomyces cerevisiae/genética , Saccharomyces cerevisiae/crescimento & desenvolvimento
9.
Plasmid ; 105: 102431, 2019 09.
Artigo em Inglês | MEDLINE | ID: mdl-31319110

RESUMO

Pinene is a monoterpene with wide industrial applications, especially as a promising high energy-density jet fuel. Traditional production of pinene on an industrial scale is material consumptive and has a low yield. As an alternative, microbial organisms have been engineered though advanced synthetic biological techniques to produce a variety of heterologous products, including pinene. Here, we investigated the stability of genetic circuits encoding the pinene producing pathway during fermentation and its relationship to the pinene titer. By replacing scar sequences in the genetic elements and modifying the genome of E. coli strain MG1655, plasmid loss caused by serious metabolic burden was eliminated, generating a remarkable increase in the pinene titer. Furthermore, the heterologous mevalonate pathway was analyzed by overexpression of enzymes and intermediates monitoring. Optimized pathway plasmids and strains were combined to increase the pinene titer to 104.6 mg/L.


Assuntos
Vias Biossintéticas/genética , Monoterpenos/metabolismo , Plasmídeos/genética , Recombinação Genética/genética , Escherichia coli/genética , Fermentação , Plasmídeos/metabolismo
10.
Appl Microbiol Biotechnol ; 103(9): 3715-3725, 2019 May.
Artigo em Inglês | MEDLINE | ID: mdl-30915501

RESUMO

Raspberry ketone is an important ingredient in the flavor and fragrance industries. Due to its low content in fruits and vegetables, the production of natural raspberry ketone using heterologous synthesis in microbial strains is recently attracting increased attention. In this work, a heterologous pathway to produce raspberry ketone from p-coumaric acid, including 4-coumarate: CoA ligase (4CL), benzalacetone synthase (BAS), and raspberry ketone/zingerone synthase (RZS1) from plants, was successfully assembled in Escherichia coli. When the RZS1 gene was introduced into E. coli and co-expressed with two other genes, the intermediate 4-hydroxybenzylidene acetone in the pathway was almost completely transformed into a raspberry ketone. Substituting TB medium for M9 medium increased raspberry ketone titers by 3-4 times. Furthermore, the heterologous pathway was partitioned into two modules; module one produced p-coumaroyl-CoA from p-coumaric acid by 4CL, and module two produced raspberry ketone from coumaroyl-CoA by the action of BAS and RZS1. Optimizing the balanced expression of the two modules, it was shown that moderate expression of module one and high expression of module two was the best combination to enhance raspberry ketone production. The engineered strain CZ-8 reached 90.97 mg/l of raspberry ketone, which was 12 times higher than previously reported. In addition, the preferred approach of the heterologous pathway was related to the heterologous genes from different sources; for example, 4CL from Arabidopsis thaliana seemed to be more suitable for raspberry ketone production than that from Petroselinum crispum. This work paves an alternative way for future economic production of natural raspberry ketone.


Assuntos
Butanonas/metabolismo , Escherichia coli/genética , Escherichia coli/metabolismo , Engenharia Metabólica , Vias Biossintéticas , Ácidos Cumáricos , Proteínas de Plantas/genética , Proteínas de Plantas/metabolismo , Plantas/enzimologia , Propionatos/metabolismo
11.
World J Microbiol Biotechnol ; 35(2): 33, 2019 Jan 31.
Artigo em Inglês | MEDLINE | ID: mdl-30706208

RESUMO

Cell metabolism in living organisms is largely regulated at the transcriptional level, and the promoters are regarded as basic regulatory elements responsible for transcription initiation. Promoter engineering is an important technique to regulate gene expression and optimize metabolite biosynthesis in metabolic engineering and synthetic biology. The rational and precise control of gene expression in the multi-gene pathways can significantly affect the metabolic flux distribution and maximize the production of specific metabolites. Thus, many efforts have been made to identify natural promoters, construct inducible or hybrid promoters, and design artificial promoters for fine-tuning specific gene expression at the transcriptional level and improving production levels of the metabolites of interest. In this review, we will briefly introduce the architecture and function of both prokaryotic and eukaryotic promoters, and provide an overview of several major approaches for promoter engineering. The recent achievements and advances by promoter engineering for the optimization of metabolite biosynthetic pathways in multiple widely-used model microorganism, including Escherichia coli, Corynebacterium glutamicum and Saccharomyces cerevisiae, will also be extensively discussed.


Assuntos
Corynebacterium glutamicum/genética , Escherichia coli/genética , Engenharia Metabólica , Regiões Promotoras Genéticas , Saccharomyces cerevisiae/genética , Corynebacterium glutamicum/metabolismo , Escherichia coli/metabolismo , Engenharia Metabólica/tendências , Saccharomyces cerevisiae/metabolismo , Biologia Sintética/tendências
12.
Metab Eng ; 50: 85-108, 2018 11.
Artigo em Inglês | MEDLINE | ID: mdl-29702275

RESUMO

Metabolic engineering aims to develop efficient cell factories by rewiring cellular metabolism. As one of the most commonly used cell factories, Saccharomyces cerevisiae has been extensively engineered to produce a wide variety of products at high levels from various feedstocks. In this review, we summarize the recent development of metabolic engineering approaches to modulate yeast metabolism with representative examples. Particularly, we highlight new tools for biosynthetic pathway optimization (i.e. combinatorial transcriptional engineering and dynamic metabolic flux control) and genome engineering (i.e. clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR associated (Cas) system based genome engineering and RNA interference assisted genome evolution) to advance metabolic engineering in yeast. We also discuss the challenges and perspectives for high throughput metabolic engineering.


Assuntos
Sistemas CRISPR-Cas , Genoma Fúngico , Engenharia Metabólica/métodos , Interferência de RNA , Saccharomyces cerevisiae/genética , Saccharomyces cerevisiae/metabolismo
13.
World J Microbiol Biotechnol ; 34(6): 77, 2018 May 23.
Artigo em Inglês | MEDLINE | ID: mdl-29796897

RESUMO

Azasugars, such as 1-deoxynojirymicin (1-DNJ), are associated with diverse pharmaceutical applications, such as antidiabetic, anti-obesity, anti-HIV, and antitumor properties. Different azasugars have been isolated from diverse microbial and plant sources though complicated purification steps, or generated by costly chemical synthesis processes. But the biosynthesis of such potent molecules using Escherichia coli as a heterologous host provides a broader opportunity to access these molecules, particularly by utilizing synthetic biological, metabolic engineering, and process optimization approaches. This work used an integrated approach of synthetic biology, enzyme engineering, and pathway optimization for rational metabolic engineering, leading to the improved production of 1-DNJ. The production of 1-DNJ in recombinant E. coli culture broth was confirmed by enzymatic assays and mass spectrometric analysis. Specifically, the pathway engineering for its key precursor, fructose-6-phosphate, along with optimized media condition, results in the highest production levels. When combined, 1-DNJ production was extended to ~ 273 mg/L, which is the highest titer of production of 1-DNJ reported using E. coli.


Assuntos
1-Desoxinojirimicina/metabolismo , Escherichia coli/genética , Escherichia coli/metabolismo , Engenharia Metabólica , Biologia Sintética , 1-Desoxinojirimicina/química , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Vias Biossintéticas/genética , Clonagem Molecular , Meios de Cultura/química , DNA Bacteriano/genética , Escherichia coli/enzimologia , Escherichia coli/crescimento & desenvolvimento , Fermentação , Frutosefosfatos/metabolismo , Genes Bacterianos/genética
14.
Metab Eng ; 43(Pt A): 21-28, 2017 09.
Artigo em Inglês | MEDLINE | ID: mdl-28780284

RESUMO

N-acetylneuraminate (NeuAc) biosynthesis has drawn much attention owing to its wide applications in many aspects. Previously, we engineered for the first time an artificial NeuAc biosynthetic pathway in Escherichia coli using glucose as sole substrate. However, rigorous requirements for the flux and cofactor balance make subsequent strain improvement rather difficult. In this study, an in vivo NeuAc biosensor was designed and applied for genetic screening the mutant library of NeuAc producer. Its NeuAc responsive manner was demonstrated using sfgfp as a reporter and a Ni2+-based selection system was developed to couple the cell growth with in vivo NeuAc concentration. Employing this selection system, the NeuAc biosynthesis pathway was optimized and the key enzyme NeuAc synthase was evolved, which improved the titer by 34% and 23%, respectively. The final strain produced up to 8.31g/L NeuAc in minimal medium using glucose as sole carbon source. This work demonstrated the effectiveness of NeuAc biosensor in genetic screening and great potential in metabolic engineering of other organisms.


Assuntos
Aptâmeros de Nucleotídeos/metabolismo , Técnicas Biossensoriais , Evolução Molecular Direcionada , Proteínas de Escherichia coli/metabolismo , Escherichia coli/metabolismo , Ácido N-Acetilneuramínico/biossíntese , Oxo-Ácido-Liases/metabolismo , Aptâmeros de Nucleotídeos/genética , Escherichia coli/genética , Proteínas de Escherichia coli/genética , Ácido N-Acetilneuramínico/genética , Oxo-Ácido-Liases/genética
15.
Metab Eng ; 43(Pt A): 37-45, 2017 09.
Artigo em Inglês | MEDLINE | ID: mdl-28800965

RESUMO

One of the most important research subjects of metabolic engineering is the pursuit of balanced metabolic pathways, which requires the modulation of expression of many genes. However, simultaneously modulating multiple genes on the chromosome remains challenging in prokaryotic organisms, including the industrial workhorse - Escherichia coli. In this work, the CRISPR/Cas9-facilitated multiplex pathway optimization (CFPO) technique was developed to simultaneously modulate the expression of multiple genes on the chromosome. To implement it, two plasmids were employed to target Cas9 to regulatory sequences of pathway genes, and a donor DNA plasmid library was constructed containing a regulator pool to modulate the expression of these genes. A modularized plasmid construction strategy was used to enable the assembly of a complex donor DNA plasmid library. After genome editing using this technique, a combinatorial library was obtained with variably expressed pathway genes. As a demonstration, the CFPO technique was applied to the xylose metabolic pathway genes in E. coli to improve xylose utilization. Three transcriptional units containing a total of four genes were modulated simultaneously with 70% efficiency, and improved strains were selected from the resulting combinatorial library by growth enrichment. The best strain, HQ304, displayed a 3-fold increase of the xylose-utilization rate. Finally, the xylose-utilization pathway of HQ304 was analyzed enzymologically to determine the optimal combination of enzyme activities.


Assuntos
Sistemas CRISPR-Cas , Proteínas de Escherichia coli/metabolismo , Escherichia coli/metabolismo , Engenharia Metabólica , Plasmídeos/genética , Xilose/metabolismo , Escherichia coli/genética , Proteínas de Escherichia coli/genética , Plasmídeos/metabolismo , Xilose/genética
16.
Microb Cell Fact ; 16(1): 47, 2017 Mar 16.
Artigo em Inglês | MEDLINE | ID: mdl-28302121

RESUMO

BACKGROUND: One of the most important research subjects of metabolic engineering is pursuing a balanced metabolic pathway, which is the basis of an efficient cell factory. In this work, we dedicated to develop a simple and efficient technique to modulate expression of multiple genes simultaneously, and select for the optimal regulation pattern. RESULTS: A Type IIs restriction based combinatory modulation (TRCM) technique was designed and established in the research. With this technique, a plasmid library containing variably regulated mvaE, mvaS, mvaK 1 , mvaD and mvaK 2 of the mevalonate (MVA) pathway were obtained and transformed into E. coli DXS37-IDI46 to obtain a ß-carotene producer library. The ratio of successfully assembled plasmids was determined to be 35%, which was increased to 100% when color based pre-screening was applied. Representative strains were sequenced to contain diverse RBSs as designed to regulate expression of MVA pathway genes. A relatively balanced MVA pathway was achieved in E. coli cell factory to increase the ß-carotene yield by two fold. Furthermore, the approximate regulation pattern of this optimal MVA pathway was illustrated. CONCLUSIONS: A TRCM technique for metabolic pathway optimization was designed and established in this research, which can be applied to various applications in terms of metabolic pathway regulation and optimization.


Assuntos
Engenharia Metabólica/métodos , Redes e Vias Metabólicas , Escherichia coli/genética , Escherichia coli/metabolismo , Biblioteca Gênica , Redes e Vias Metabólicas/genética , Ácido Mevalônico/metabolismo , Plasmídeos , beta Caroteno/biossíntese
17.
Appl Microbiol Biotechnol ; 101(10): 4041-4052, 2017 May.
Artigo em Inglês | MEDLINE | ID: mdl-28229207

RESUMO

L-Malic acid is an important component of a vast array of food additives, antioxidants, disincrustants, pharmaceuticals, and cosmetics. Here, we presented a pathway optimization strategy and a transporter modification approach to reconstruct the L-malic acid biosynthesis pathway and transport system, respectively. First, pyruvate carboxylase (pyc) and malate dehydrogenase (mdh) from Aspergillus flavus and Rhizopus oryzae were combinatorially overexpressed to construct the reductive tricarboxylic acid (rTCA) pathway for L-malic acid biosynthesis. Second, the L-malic acid transporter (Spmae) from Schizosaccharomyces pombe was engineered by removing the ubiquitination motification to enhance the L-malic acid efflux system. Finally, the L-malic acid pathway was optimized by controlling gene expression levels, and the final L-malic acid concentration, yield, and productivity were up to 30.25 g L-1, 0.30 g g-1, and 0.32 g L-1 h-1 in the resulting strain W4209 with CaCO3 as a neutralizing agent, respectively. In addition, these corresponding parameters of pyruvic acid remained at 30.75 g L-1, 0.31 g g-1, and 0.32 g L-1 h-1, respectively. The metabolic engineering strategy used here will be useful for efficient production of L-malic acid and other chemicals.


Assuntos
Vias Biossintéticas/genética , Ciclo do Ácido Cítrico/genética , Transportadores de Ácidos Dicarboxílicos/genética , Malatos/metabolismo , Engenharia Metabólica/métodos , Aspergillus flavus/enzimologia , Ciclo do Ácido Cítrico/fisiologia , Transportadores de Ácidos Dicarboxílicos/metabolismo , Expressão Gênica , Concentração de Íons de Hidrogênio , Malato Desidrogenase/genética , Malatos/análise , Piruvato Carboxilase/genética , Ácido Pirúvico/análise , Ácido Pirúvico/metabolismo , Rhizopus/enzimologia , Saccharomyces cerevisiae/metabolismo , Schizosaccharomyces/genética , Ubiquitinação/genética
18.
J Ind Microbiol Biotechnol ; 44(7): 1083-1095, 2017 07.
Artigo em Inglês | MEDLINE | ID: mdl-28324236

RESUMO

Resveratrol has been the subject of numerous scientific investigations due to its health-promoting activities against a variety of diseases. However, developing feasible and efficient microbial processes remains challenging owing to the requirement of supplementing expensive phenylpropanoic precursors. Here, various metabolic engineering strategies were developed for efficient de novo biosynthesis of resveratrol. A recombinant malonate assimilation pathway from Rhizobium trifolii was introduced to increase the supply of the key precursor malonyl-CoA and simultaneously, the clustered regularly interspaced short palindromic repeats interference system was explored to down-regulate fatty acid biosynthesis pathway to inactivate the malonyl-CoA consumption pathway. Down-regulation of fabD, fabH, fabB, fabF, fabI increased resveratrol production by 80.2, 195.6, 170.3, 216.5 and 123.7%, respectively. Furthermore, the combined effect of these genetic perturbations was investigated, which increased the resveratrol titer to 188.1 mg/L. Moreover, the efficiency of this synthetic pathway was improved by optimizing the expression level of the rate-limiting enzyme TAL based on reducing mRNA structure of 5' region. This further increased the final resveratrol titer to 304.5 mg/L. The study described here paves the way to the development of a simple and economical process for microbial production of resveratrol.


Assuntos
Escherichia coli/genética , Engenharia Metabólica , Microrganismos Geneticamente Modificados , Estilbenos/metabolismo , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Sequência de Bases , Meios de Cultura/química , Escherichia coli/metabolismo , Proteínas de Escherichia coli/genética , Proteínas de Escherichia coli/metabolismo , Malonil Coenzima A/metabolismo , Complexos Multienzimáticos/genética , Complexos Multienzimáticos/metabolismo , Conformação de Ácido Nucleico , Resveratrol
19.
Beilstein J Org Chem ; 13: 845-854, 2017.
Artigo em Inglês | MEDLINE | ID: mdl-28546842

RESUMO

With over 50.000 identified compounds terpenes are the largest and most structurally diverse group of natural products. They are ubiquitous in bacteria, plants, animals and fungi, conducting several biological functions such as cell wall components or defense mechanisms. Industrial applications entail among others pharmaceuticals, food additives, vitamins, fragrances, fuels and fuel additives. Central building blocks of all terpenes are the isoprenoid compounds isopentenyl diphosphate and dimethylallyl diphosphate. Bacteria like Escherichia coli harbor a native metabolic pathway for these isoprenoids that is quite amenable for genetic engineering. Together with recombinant terpene biosynthesis modules, they are very suitable hosts for heterologous production of high value terpenes. Yet, in contrast to the number of extracted and characterized terpenes, little is known about the specific biosynthetic enzymes that are involved especially in the formation of highly functionalized compounds. Novel approaches discussed in this review include metabolic engineering as well as site-directed mutagenesis to expand the natural terpene landscape. Focusing mainly on the validation of successful integration of engineered biosynthetic pathways into optimized terpene producing Escherichia coli, this review shall give an insight in recent progresses regarding manipulation of mostly diterpene synthases.

20.
Metab Eng ; 33: 12-18, 2016 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-26556130

RESUMO

Development of sustainable biological process for the production of bulk chemicals from renewable feedstock is an important goal of white biotechnology. Ethylene glycol (EG) is a large-volume commodity chemical with an annual production of over 20 million tons, and it is currently produced exclusively by petrochemical route. Herein, we report a novel biosynthetic route to produce EG from glucose by the extension of serine synthesis pathway of Corynebacterium glutamicum. The EG synthesis is achieved by the reduction of glycoaldehyde derived from serine. The transformation of serine to glycoaldehyde is catalyzed either by the sequential enzymatic deamination and decarboxylation or by the enzymatic decarboxylation and oxidation. We screened the corresponding enzymes and optimized the production strain by combinatorial optimization and metabolic engineering. The best engineered C. glutamicum strain is able to accumulate 3.5 g/L of EG with the yield of 0.25 mol/mol glucose in batch cultivation. This study lays the basis for developing an efficient biological process for EG production.


Assuntos
Corynebacterium glutamicum/genética , Corynebacterium glutamicum/metabolismo , Etilenoglicol/metabolismo , Glucose/metabolismo , Engenharia Metabólica/métodos , Serina/metabolismo , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Etilenoglicol/isolamento & purificação , Transdução de Sinais/fisiologia
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