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1.
J Biotechnol ; 296: 75-82, 2019 Apr 20.
Artigo em Inglês | MEDLINE | ID: mdl-30904592

RESUMO

The Gram-negative bacterium E. coli is the host of choice for the production of a multitude of recombinant proteins in industry. Generally, cultivation is easy, media are cheap and a high product titer can be obtained. However, harsh induction procedures using IPTG as inducer are often referred to cause stress reactions, leading to a phenomenon known as metabolic burden and expression of inclusion bodies. In this contribution, we present different strategies for determination of critical timepoints for product stability in an E. coli IB bioprocess. As non-controlled feeding during induction regularly led to undesired product loss, we applied physiological feeding control. We found that the feeding strategy has indeed high impact on IB productivity. However, high applied qs,C increased IB product titer, but subsequently stressed the cells and finally led to product degradation. Calculating the cumulated glycerol uptake of the cells during induction phase (dSn), we found an empirical value, which serves as a strong indicator for process performance and can be used as process analytical tool. We tested different approaches starting from offline control. Glycerol accumulation could be used as trigger to establish a model-based approach to predict titer and viable cell concentration for a model protein. This straight forward control and model-based approach is high beneficial for upstream development and for increasing stability.


Assuntos
Glicerol/química , Corpos de Inclusão/efeitos dos fármacos , Isopropiltiogalactosídeo/efeitos adversos , Proteínas Recombinantes/genética , Escherichia coli/genética , Escherichia coli/crescimento & desenvolvimento , Escherichia coli/metabolismo , Glicerol/metabolismo , Corpos de Inclusão/genética , Corpos de Inclusão/metabolismo , Isopropiltiogalactosídeo/química , Proteínas Recombinantes/biossíntese
2.
J Basic Microbiol ; 59(4): 359-367, 2019 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-30672599

RESUMO

An agarase gene (agaM1) was cloned, expressed and characterized by using Escherichia coli as host strain, revealing the outstanding properties of recombinant AgaM1 (rAgaM1) in agarose degradation and neoagaro-oligosaccharides (NAs) production in our previous work. In current study, agaM1 was extracellularly expressed in Bacillus subtilis, and we aim to assess the ability of the supernatant of recombinant B. subtilis fermentation broth containing rAgaM1 to degrade agarose without protein purification, which would save the cost of purification and avoid the activity loss during purification. The pH and temperature optima for the supernatant were 7.0 and 50 °C, respectively. The supernatant containing rAgaM1 has outstanding stability against 40 °C and 50 °C. Besides, we detailedly studied the possible influence factors of rAgaM1 expression in the supernatant, including pH, temperature, isopropyl ß-D-thiogalactoside (IPTG) concentration, initial optical density at a wavelength of 600 nm (OD600 ), and induction time, and the optimum conditions for rAgaM1 expression by B. subtilis were confirmed. Moreover, the supernatant was able to produce NAs by using the Gracilaria lemaneiformis, whose cells were broken by autoclaving, as substrate, and a total of 1.41 µmol ml-1 of NA, including neoagarotetraose and neoagarohexaose, was produced after degradation for 48 h. This ability could save the cost of substrates in NA production, although the method requires a further study. Our results reveal that the NAs with great potential in food and pharmaceutical industries could be inexpensive to make by the supernatant containing rAgaM1 of B. subtilis fermentation broth in the foreseeable future.


Assuntos
Bacillus subtilis/enzimologia , Bacillus subtilis/metabolismo , Glicosídeo Hidrolases/metabolismo , Oligossacarídeos/biossíntese , Bacillus subtilis/genética , Meios de Cultura , Estabilidade Enzimática , Galactosídeos/metabolismo , Expressão Gênica/efeitos dos fármacos , Glicosídeo Hidrolases/genética , Concentração de Íons de Hidrogênio , Isopropiltiogalactosídeo/química , Isopropiltiogalactosídeo/farmacologia , Oligossacarídeos/metabolismo , Proteínas Recombinantes/genética , Proteínas Recombinantes/metabolismo , Sefarose/metabolismo , Temperatura
3.
BMC Microbiol ; 18(1): 158, 2018 10 24.
Artigo em Inglês | MEDLINE | ID: mdl-30355324

RESUMO

BACKGROUND: Transposon mutagenesis is highly valuable for bacterial genetic and genomic studies. The transposons are usually delivered into host cells through conjugation or electroporation of a suicide plasmid. However, many bacterial species cannot be efficiently conjugated or transformed for transposon saturation mutagenesis. For this reason, temperature-sensitive (ts) plasmids have also been developed for transposon mutagenesis, but prolonged incubation at high temperatures to induce ts plasmid loss can be harmful to the hosts and lead to enrichment of mutants with adaptive genetic changes. In addition, the ts phenotype of a plasmid is often strain- or species-specific, as it may become non-ts or suicidal in different bacterial species. RESULTS: We have engineered several conditional suicide plasmids that have a broad host range and whose loss is IPTG-controlled. One construct, which has the highest stability in the absence of IPTG induction, was then used as a curable vector to deliver hyperactive miniTn5 transposons for insertional mutagenesis. Our analyses show that these new tools can be used for efficient and regulatable transposon mutagenesis in Escherichia coli, Acinetobacter baylyi and Pseudomonas aeruginosa. In P. aeruginosa PAO1, we have used this method to generate a Tn5 insertion library with an estimated diversity of ~ 108, which is ~ 2 logs larger than the best transposon insertional library of PAO1 and related Pseudomonas strains previously reported. CONCLUSION: We have developed a number of IPTG-controlled conditional suicide plasmids. By exploiting one of them for transposon delivery, a highly efficient and broadly useful mutagenesis system has been developed. As the assay condition is mild, we believe that our methodology will have broad applications in microbiology research.


Assuntos
Elementos de DNA Transponíveis , Isopropiltiogalactosídeo/química , Mutagênese Insercional/métodos , Plasmídeos/genética , Acinetobacter/genética , Clonagem Molecular , Escherichia coli/genética , Biblioteca Gênica , Engenharia Genética/métodos , Vetores Genéticos , Pseudomonas aeruginosa/genética
4.
Mol Biol Rep ; 45(5): 1197-1208, 2018 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-30032381

RESUMO

Cellulases like endoglucanase II (EGII) from Trichoderma reesei are the industrial enzymes responsible for breakdown of cellulosic materials. Due to its importance for production of eco-friendly commercial products such as alternative biofuels, industrial EGII production and optimization of its production conditions merit consideration. The gene responsible for EGII expression was designed and sub-cloned in to pET26b expression vector and transformed into BL21 (DE3) pLysS cells. Protein expression and purification was followed by a RSM design (20 experiments) to optimize the IPTG Concentration, post induction period and cell density (OD600). Thereafter, another RSM design (20 experiments) was performed to find and optimize the most important permeabilizing factors to achieve higher extracellular EGII expression. The EGII expression levels were assessed by Ghose method. The EGII gene was sub-cloned and protein expression and purification were successfully performed. The RSM experiments indicated that 0.331 mM for IPTG Concentration, 10.89 H for post induction period and 3.41 for cell density (OD600) were the optimum culture. Glycine (0.99%), Triton X-100 (0.73%) and CaCl2 (0.232) have been assigned as the most effective membrane permeabalizing factors. Optimization of culture medium components has led to a 3.06 fold increase in extracellular expression of EGII. RSM is an amenable method to optimize the expression of commercially significant enzymes. Our results indicated that optimization of IPTG concentration, post induction period and cell density along with glycine, Triton X-100 and Ca2+ concentration could lead to more cost effective industrial production of EGII.


Assuntos
Celulase/genética , Celulase/metabolismo , Meios de Cultura/química , Escherichia coli/crescimento & desenvolvimento , Trichoderma/enzimologia , Técnicas Bacteriológicas , Cálcio/química , Cromatografia por Troca Iônica , Clonagem Molecular , Escherichia coli/genética , Proteínas Fúngicas/genética , Proteínas Fúngicas/metabolismo , Glicina/química , Isopropiltiogalactosídeo/química , Octoxinol/química , Engenharia de Proteínas , Trichoderma/genética
5.
J Basic Microbiol ; 58(9): 806-810, 2018 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-29962051

RESUMO

The lac operon is a delicate inducible gene expression element in bacteria. To efficiently induce gene expression, a sufficient dosage of an inducer, usually that of 500-1000 µM isopropyl ß-D-1-thiogalactopyranoside (IPTG), is required to keep repressor LacI from its binding sites, which is a heavy cost burden in low-value-added products. So we propose a strategy to reduce the required dosage of IPTG by restricting LacI expression. To test this strategy, we employed a reconstructed IPTG inducible expression system based on lac operon, Promoter(lacO)-target gene-PtacL-lacI, where a modified promoter, Ptac, with a random synthetic library (PtacL) to instead of PlacI to optimize LacI expression in Escherichia coli. Finally, the PtacL mutant, PtacL4, which could maintain the same repression effect as the original PlacI while reducing the required dosage of IPTG from 500 to 20 µM, was selected. This method is simple and efficient and can be of a good reference point for attempts to reduce inducer concentration in the IPTG or similar inducible expression systems.


Assuntos
Proteínas de Escherichia coli/genética , Escherichia coli/genética , Técnicas Genéticas , Isopropiltiogalactosídeo/química , Óperon Lac/genética , Repressores Lac/genética , Sítios de Ligação , Proteínas de Escherichia coli/metabolismo , Expressão Gênica/efeitos dos fármacos , Isopropiltiogalactosídeo/farmacologia , Repressores Lac/metabolismo , Plasmídeos , Regiões Promotoras Genéticas/genética , Bibliotecas de Moléculas Pequenas
6.
Nucleic Acids Res ; 46(10): 5001-5011, 2018 06 01.
Artigo em Inglês | MEDLINE | ID: mdl-29584872

RESUMO

In any living cell, genome maintenance is carried out by DNA-binding proteins that recognize specific sequences among a vast amount of DNA. This includes fundamental processes such as DNA replication, DNA repair, and gene expression and regulation. Here, we study the mechanism of DNA target search by a single lac repressor protein (LacI) with ultrafast force-clamp spectroscopy, a sub-millisecond and few base-pair resolution technique based on laser tweezers. We measure 1D-diffusion of proteins on DNA at physiological salt concentrations with 20 bp resolution and find that sliding of LacI along DNA is sequence dependent. We show that only allosterically activated LacI slides along non-specific DNA sequences during target search, whereas the inhibited conformation does not support sliding and weakly interacts with DNA. Moreover, we find that LacI undergoes a load-dependent conformational change when it switches between sliding and strong binding to the target sequence. Our data reveal how DNA sequence and molecular switching regulate LacI target search process and provide a comprehensive model of facilitated diffusion for LacI.


Assuntos
DNA/metabolismo , Repressores Lac/química , Repressores Lac/metabolismo , Pareamento de Bases , Difusão , Isopropiltiogalactosídeo/química , Repressores Lac/genética , Pinças Ópticas , Conformação Proteica , Análise Espectral/instrumentação , Análise Espectral/métodos
7.
Protein Pept Lett ; 24(11): 1021-1029, 2017.
Artigo em Inglês | MEDLINE | ID: mdl-28741464

RESUMO

BACKGROUND: Mastoparan B (MPB) is a venom peptide isolated from Vespa basalis (black-bellied hornet), one of the dangerous vespine wasps found in Taiwan. MPB is a tetradecapeptide (LKLKSIVSWAKKVL), amphiphilic venom peptide, with a molecular mass of 1.6 kDa. MPB belongs to an evolutionarily conserved component of the innate immune response against microbes. In this study, we attempted to modify a reliable oleosin-based fusion expression strategy coupled with the artificial oil body (AOB)-cyanogen bromide (CNBr) platform to produce bioactive MPB. OBJECTIVES: The aim of this study was to develop an artificial oil body (AOB)-cyanogen bromide (CNBr) platform to produce the bioactive form of mastoparan B (MPB), which in a manner identical to that of its native counterpart. METHODS: The plasmid pET30-His6-rOle(127M→L)-MPB was constructed, and then four different E. coli strains- BL21(DE3), BL21(DE3)pLysS, C41(DE3), and C43(DE3) were tested to identify the most suitable host for the pET30-His6-rOle(127M→L)-MPB fusion protein expression. We optimized the expression conditions by testing different growth temperatures, isopropyl-ß-D-thiogalactoside (IPTG) concentrations, and post-induction collection times. Afterwards, the His6-rOle(127M→L)-MPB protein was purified by one-step nickel-chelated affinity chromatography (Ni2+-NTA) under denaturing conditions. The purified His6-rOle(127M→L)-MPB was selectively cleaved by thrombin protease to remove the His6-tag and the leader peptide from the N-terminus. Subsequently, rOle(127M→L)-MPB protein was constituted into AOB and incubated with CNBr for a cleavage reaction, which resulted in the release of the MPB from rOle(127M→L)-MPB protein via AOB. The purified MPB was identified by MALDI-MS and HPLC analysis, and its bioactivity was examined by antimicrobial testing. RESULTS: After a 2-h induction period, the E. coli C43(DE3) was found to be superior to BL21(DE3) and the other protease-deficient strains as an expression host. And, the optimal His6-rOle(127M→L)-MPB expression at 37°C for 2 h after induction with 5 µM IPTG. The purified MPB showed that a single major peak was detected by HPLC/UV detection with a retention time of 22.5 minutes, which was approximately 90% pure. The putative MPB, and over two-third of the peptide sequence was verified by the MALDI-MS analysis. Finally, the purified MPB was examined by a broth dilution-antimicrobial susceptibility test. These results indicated that the purified MPB was bioactive and very effective in anti-bacterial (E. coli J96) activity. Here, we successfully used the oleosin-based fusion expression strategy coupled with the artificial oil body (AOB)-cyanogen bromide (CNBr) platform to produce bioactive MPB peptide which, in a manner identical to that of its native counterpart. CONCLUSION: In this study, the recombinant oleosin based fusion strategy coupled with AOB-CNBr purification platform open a new avenue for the production of active MPB and facilitate the studies and applications of the peptide in the future for medicinal applications such as hypotension and antibacterial effect.


Assuntos
Brometo de Cianogênio/química , Gotículas Lipídicas/química , Peptídeos/química , Peptídeos/genética , Peçonhas/química , Sequência de Aminoácidos , Antibacterianos/química , Antibacterianos/farmacologia , Cromatografia Líquida de Alta Pressão/métodos , Sistemas de Liberação de Medicamentos/métodos , Liberação Controlada de Fármacos , Escherichia coli , Expressão Gênica , Humanos , Peptídeos e Proteínas de Sinalização Intercelular , Isopropiltiogalactosídeo/química , Tamanho da Partícula , Peptídeos/metabolismo , Proteínas Recombinantes de Fusão/química , Proteínas Recombinantes de Fusão/farmacologia
8.
Biophys Chem ; 231: 39-44, 2017 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-28249763

RESUMO

Previous investigations of the sensitivity of the lac repressor to high-hydrostatic pressure have led to varying conclusions. Here high-pressure solution NMR spectroscopy is used to provide an atomic level view of the pressure induced structural transition of the lactose repressor regulatory domain (LacI* RD) bound to the ligand IPTG. As the pressure is raised from ambient to 3kbar the native state of the protein is converted to a partially unfolded form. Estimates of rotational correlation times using transverse optimized relaxation indicates that a monomeric state is never reached and that the predominate form of the LacI* RD is dimeric throughout this pressure change. Spectral analysis suggests that the pressure-induced transition is localized and is associated with a volume change of approximately -115mlmol-1 and an average pressure dependent change in compressibility of approximately 30mlmol-1kbar-1. In addition, a subset of resonances emerge at high-pressures indicating the presence of a non-native but folded alternate state.


Assuntos
Repressores Lac/química , Dimerização , Escherichia coli/metabolismo , Pressão Hidrostática , Isopropiltiogalactosídeo/química , Isopropiltiogalactosídeo/metabolismo , Repressores Lac/genética , Repressores Lac/metabolismo , Ressonância Magnética Nuclear Biomolecular , Desdobramento de Proteína , Proteínas Recombinantes/biossíntese , Proteínas Recombinantes/química , Proteínas Recombinantes/isolamento & purificação , Termodinâmica
9.
Lett Appl Microbiol ; 61(1): 36-43, 2015 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-25800964

RESUMO

UNLABELLED: The Escherichia coli K-12 strain BL21/pETSD10 was used to produce recombinant endocellular 1,3-ß-glucanase. This enzyme is responsible for the hydrolysis of the glycosidic bond in specific polysaccharides with tracts of unsubstituted ß-1,3-linked glucosyl residues. Conditions for the overproduction were experimentally examined, and the optimal values of the process on a bioreactor scale were found by interpolation of the experimental data. Cell induction was preferred during log-phase with relatively high cell density at OD600 near 1·1 with 0·074 g l(-1) of Isopropyl ß-D-1-thiogalactopyranoside (IPTG). The higher concentration of IPTG favors high enzyme production but with an excess of ballast protein. 1,3-ß-glucanase production was favoured with moderate culture aeration (0·7-0·9 vvm) and moderate stirring (125-150 rev min(-1) ). The highest specific glucanase activity (252 U g(-1) ) was found during validated experiments carried out at aeration at 135 rev min(-1) and stirring at 0·8 vvm. Due to high-tonnage industrial applications (i.e. to hemicellulose hydrolysis), the enzymatic preparation did not need to be highly purified. After pretreatment (precipitation with ammonium sulphate and dialysis) of the crude preparation, the enzymatic protein was one of the three main proteins in the preparation. The reaction rate with respect to the substrate (CM-curdlan) was described by the first order reaction equation (k = 1·95 l h(-1 ) g(-1) ). Products formed in the reaction are composed of nine glucose units on average. In the reaction conditions, the preparation showed very good stability (t1/2 = 202 h). SIGNIFICANCE AND IMPACT OF THE STUDY: The results contribute to the knowledge of cultivation parameters of E. coli K-12 strain BL21/pETSD10 on a bioreactor scale to overproduce an enzyme degrading ß-1,3-glucans. The optimal values of protein concentration, specific activity and total glucanase activity as a function of aeration and stirring were evaluated by numerical analysis. The obtained values were validated as positive. The protein degrades some bonds in hemicellulose. Thus, the protein could be applied as one of the degrading components for hemicellulose.


Assuntos
Reatores Biológicos , Escherichia coli K12/enzimologia , Glucana 1,3-beta-Glucosidase/biossíntese , Proteínas Recombinantes/biossíntese , beta-Glucanas/metabolismo , Endopeptidases/metabolismo , Escherichia coli K12/genética , Escherichia coli K12/metabolismo , Glucana 1,3-beta-Glucosidase/genética , Hidrólise , Isopropiltiogalactosídeo/química , Cinética , Dados de Sequência Molecular , Proteínas Recombinantes/genética
10.
Bioresour Technol ; 188: 202-8, 2015.
Artigo em Inglês | MEDLINE | ID: mdl-25739996

RESUMO

Nitrilases constitute an important class of biocatalysts for chiral synthesis. This work was undertaken with the aim to optimize nitrilase production in a host that is well-studied for protein production. Process parameters were optimized for high cell density fermentation, in batch and fed-batch modes, of Escherichia coli BL21 (DE3) expressing Pseudomonas fluorescens nitrilase with a T7 promoter based expression system. Effects of different substrates, temperature and isopropyl ß-D-1-thiogalactopyranoside (IPTG) induction on nitrilase production were studied. Super optimal broth containing glycerol but without an inducer gave best results in batch mode with 32 °C as the optimal temperature. Use of IPTG led to insoluble protein and lower enzyme activity. Optimized fed-batch strategy resulted in significant improvement in specific activity as well as volumetric productivity of the enzyme. On a volumetric basis, the activity improved 40-fold compared to the unoptimized batch process.


Assuntos
Aminoidrolases/biossíntese , Escherichia coli/metabolismo , Fermentação , Glicerol/química , Proteínas Recombinantes/biossíntese , Proteínas de Bactérias/biossíntese , Reatores Biológicos , Carbono/química , Meios de Cultura/metabolismo , Glucose/química , Microbiologia Industrial , Isopropiltiogalactosídeo/química , Plasmídeos/metabolismo , Pseudomonas fluorescens/enzimologia
11.
Bioprocess Biosyst Eng ; 38(4): 651-9, 2015 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-25326062

RESUMO

An efficient induction strategy that consisted of multiple additions of small doses of isopropyl-ß-D-thiogalactopyranoside (IPTG) in the early cell growth phase was developed for enhancing Pfu DNA polymerase production in Escherichia coli. In comparison to the most commonly used method of a single induction of 1 mM IPTG, the promising induction strategy resulted in an increase in the Pfu activity of 13.5% in shake flasks, while simultaneously decreasing the dose of IPTG by nearly half. An analysis of the intracellular IPTG concentrations indicated that the cells need to maintain an optimum intracellular IPTG concentration after 6 h for efficient Pfu DNA polymerase production. A significant increase in the Pfu DNA polymerase activity of 31.5% under the controlled dissolved oxygen concentration of 30% in a 5 L fermentor was achieved using the multiple IPTG induction strategy in comparison with the single IPTG induction. The induction strategy using multiple inputs of IPTG also avoided over accumulation of IPTG and reduced the cost of Pfu DNA polymerase production.


Assuntos
DNA Polimerase Dirigida por DNA/biossíntese , Escherichia coli/genética , Microbiologia Industrial , Reatores Biológicos , Escherichia coli/metabolismo , Fermentação , Regulação Bacteriana da Expressão Gênica , Isopropiltiogalactosídeo/química , Oxigênio/química , Pyrococcus furiosus/enzimologia , Proteínas Recombinantes/biossíntese
12.
Huan Jing Ke Xue ; 35(6): 2287-93, 2014 Jun.
Artigo em Chinês | MEDLINE | ID: mdl-25158508

RESUMO

Luminescent bacteria have attracted more and more attention in recent years as an effective mean for biological toxicity of water environment monitoring. First of all, fluorescent protein Frex was correctly expressed in Escherichia coli, and then the effect of toxic substances on microbial metabolism in the water was monitored through the determination of the changes in the fluorescence intensity in bacteria caused by the change of NADH level in the bacteria. Then the effects of culture temperature, inducing time and the final concentration of inductor isopropyl beta-D-thiogalactopyranoside (IPTG) on the expression level and fluorescent activity of the fusion protein Frex were studied. The recombinant fluorescent bacteria was then applied in the initial detection of toxic substances in water environment. Four international standard substances of biological toxicity test including HgCl2, 3,5-dichlorophenol, potassium dichromate, and zinc sulfate heptahydrate were chosen to conduct experimental assay. The results suggested that all of these substances can cause a rapid decrease in the fluorescence of the bacteria. This test method has advantages of rapid reaction and high sensitivity. Meanwhile, the optimization of the conditions for the biological toxicity test lays foundation for subsequent application, and expands the application scope of luminescent bacteria in other aspects.


Assuntos
Escherichia coli , Proteínas Luminescentes/química , Proteínas Recombinantes de Fusão/química , Testes de Toxicidade/métodos , Poluentes Químicos da Água/análise , Bioensaio , Clorofenóis/análise , Fluorescência , Isopropiltiogalactosídeo/química , Cloreto de Mercúrio/análise , Dicromato de Potássio/análise , Temperatura , Sulfato de Zinco/análise
13.
J Phys Chem A ; 118(39): 9272-9, 2014 Oct 02.
Artigo em Inglês | MEDLINE | ID: mdl-24941022

RESUMO

We studied ligand dissociation from the inducer-binding domain of the Lac repressor protein using temperature-accelerated molecular dynamics (TAMD) simulations. With TAMD, ligand dissociation could be observed within relatively short simulation time. This allowed many dissociation trajectories to be sampled. Under the adiabatic approximation of TAMD, all but one degree of freedom of the system were sampled from usual canonical ensembles at room temperature. Thus, meaningful statistical analyses could be carried out on the trajectories. A systematic approach was proposed to analyze possible correlations between ligand dissociation and fluctuations of various protein conformational coordinates. These analyses employed relative entropies, allowing both linear and nonlinear correlations to be considered. Applying the simulation and analysis methods to the inducer binding domain of the Lac repressor protein, we found that ligand dissociation from this protein correlated mainly with fluctuations of side-chain conformations of a few residues that surround the binding pocket. In addition, the two binding sites of the dimeric protein were dynamically coupled: occupation of one site by an inducer molecule could significantly reduce or slow down conformational dynamics around the other binding pocket.


Assuntos
Isopropiltiogalactosídeo/química , Repressores Lac/química , Simulação de Dinâmica Molecular , Sítios de Ligação , Entropia , Ligantes , Modelos Lineares , Dinâmica não Linear , Ligação Proteica , Temperatura
14.
Integr Biol (Camb) ; 6(8): 755-65, 2014 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-24894989

RESUMO

Light can be used to control numerous cellular processes including protein function and interaction as well as gene expression in a non-invasive fashion and with unprecedented spatiotemporal resolution. However, for chemical phototriggers tight, gradual, and homogeneous light response has never been attained in living cells. Here, we report on a light-responsive bacterial T7 RNA polymerase expression system based on a photocaged derivative of the inducer molecule isopropyl-ß-d-thiogalactopyranoside (IPTG). We have comparatively analyzed different Escherichia coli lac promoter-regulated expression systems in batch and microfluidic single-cell cultivation. The lacY-deficient E. coli strain Tuner(DE3) harboring additional plasmid-born copies of the lacI gene exhibited a sensitive and defined response to increasing IPTG concentrations. Photocaged IPTG served as a synthetic photo-switch to convert the E. coli system into an optogenetic expression module allowing for precise and gradual light-triggering of gene expression as demonstrated at the single cell level.


Assuntos
Escherichia coli/genética , Regulação Bacteriana da Expressão Gênica , Isopropiltiogalactosídeo/química , Luz , Regiões Promotoras Genéticas , Benzaldeídos/química , RNA Polimerases Dirigidas por DNA/metabolismo , Relação Dose-Resposta a Droga , Escherichia coli/metabolismo , Proteínas de Escherichia coli/metabolismo , Perfilação da Expressão Gênica , Genômica , Processamento de Imagem Assistida por Computador , Óperon Lac , Técnicas Analíticas Microfluídicas , Proteínas de Transporte de Monossacarídeos/metabolismo , Plasmídeos/metabolismo , Simportadores/metabolismo , Fatores de Tempo , Proteínas Virais/metabolismo
15.
Proc Natl Acad Sci U S A ; 111(5): 1784-8, 2014 Feb 04.
Artigo em Inglês | MEDLINE | ID: mdl-24453216

RESUMO

Here we describe the X-ray crystal structure of a double-Trp mutant (Gly46→Trp/Gly262→Trp) of the lactose permease of Escherichia coli (LacY) with a bound, high-affinity lactose analog. Although thought to be arrested in an open-outward conformation, the structure is almost occluded and is partially open to the periplasmic side; the cytoplasmic side is tightly sealed. Surprisingly, the opening on the periplasmic side is sufficiently narrow that sugar cannot get in or out of the binding site. Clearly defined density for a bound sugar is observed at the apex of the almost occluded cavity in the middle of the protein, and the side chains shown to ligate the galactopyranoside strongly confirm more than two decades of biochemical and spectroscopic findings. Comparison of the current structure with a previous structure of LacY with a covalently bound inactivator suggests that the galactopyranoside must be fully ligated to induce an occluded conformation. We conclude that protonated LacY binds D-galactopyranosides specifically, inducing an occluded state that can open to either side of the membrane.


Assuntos
Metabolismo dos Carboidratos , Escherichia coli/enzimologia , Proteínas de Membrana Transportadoras/química , Proteínas de Membrana Transportadoras/metabolismo , Aminoácidos/metabolismo , Sítios de Ligação , Cristalografia por Raios X , Isopropiltiogalactosídeo/química , Isopropiltiogalactosídeo/metabolismo , Modelos Moleculares , Proteínas Mutantes/química , Proteínas Mutantes/metabolismo , Ligação Proteica , Estrutura Secundária de Proteína , Eletricidade Estática , Especificidade por Substrato
16.
Proc Natl Acad Sci U S A ; 111(3): 972-7, 2014 Jan 21.
Artigo em Inglês | MEDLINE | ID: mdl-24395809

RESUMO

Synthetic biology promises to revolutionize biotechnology by providing the means to reengineer and reprogram cellular regulatory mechanisms. However, synthetic gene circuits are often unreliable, as changes to environmental conditions can fundamentally alter a circuit's behavior. One way to improve robustness is to use intrinsic properties of transcription factors within the circuit to buffer against intra- and extracellular variability. Here, we describe the design and construction of a synthetic gene oscillator in Escherichia coli that maintains a constant period over a range of temperatures. We started with a previously described synthetic dual-feedback oscillator with a temperature-dependent period. Computational modeling predicted and subsequent experiments confirmed that a single amino acid mutation to the core transcriptional repressor of the circuit results in temperature compensation. Specifically, we used a temperature-sensitive lactose repressor mutant that loses the ability to repress its target promoter at high temperatures. In the oscillator, this thermoinduction of the repressor leads to an increase in period at high temperatures that compensates for the decrease in period due to Arrhenius scaling of the reaction rates. The result is a transcriptional oscillator with a nearly constant period of 48 min for temperatures ranging from 30 °C to 41 °C. In contrast, in the absence of the mutation the period of the oscillator drops from 60 to 30 min over the same temperature range. This work demonstrates that synthetic gene circuits can be engineered to be robust to extracellular conditions through protein-level modifications.


Assuntos
Relógios Circadianos , Escherichia coli/metabolismo , Redes Reguladoras de Genes , Engenharia de Proteínas , Biologia Sintética , Simulação por Computador , Proteínas de Escherichia coli/metabolismo , Isopropiltiogalactosídeo/química , Repressores Lac/metabolismo , Microfluídica , Mutação , Proteínas/química , Temperatura , Fatores de Tempo
17.
Asian Pac J Trop Med ; 7(2): 85-92, 2014 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-24461519

RESUMO

OBJECTIVE: To clone, express and purify a putative parasitic nematode specific protein of Setaria digitata (S. digitata), filarial nematode that infects livestock and cause significant economic losses in Far East and Asia to be used for structural and functional analyses. METHODS: To characterize uncharacterized gene of S. digitata (SDUG), the herterologous expression of SDUG was carried out in the pET [cloned into pET45b(+)] expression system initially and co-expression of SDUG using chaperone plasmids pG-KJE8, pGro 7, pKJE7, pG-Tf2 and pTf16 containing chaperone proteins of dnaK-dnaJ-grpE-groES-gro-E, groES-groEL, dnaK-dnaJ-grpE, groES-groEL-tig, and tig respectively, was carried out subsequently. RESULTS: Expression of SDUG was seen when Escherichia coli strain BL21(DE3) is used, while concentrating protein largely into the insoluble fraction. The co-expression of SDUG using chaperone plasmid mediated system indicated a significant increase of the protein in the soluble fraction. Of the chaperon plasmid sets, the highest amount of recombinant SDUP in the soluble fraction was seen when pGro7 was used in the presence of 2 mg/mL L-arabinose and 0.6M IPTG concentration in the culture medium and for 3 h of incubation at the temperature of 28 °C. Recombinant SDUG was purified both from soluble and insoluble fractions using Ni affinity chromatography. SDS-PAGE and western blot analyses of these proteins revealed a single band having expected size of ∼24 kDa. CONCLUSIONS: SDUG seems to be more aggregate-prone and hydrophobic in nature and such protein can make soluble by correct selecting the inducer concentrations and induction temperature and its duration.


Assuntos
Proteínas de Helminto/biossíntese , Proteínas de Helminto/genética , Setaria (Nematoide)/genética , Animais , Clonagem Molecular , Meios de Cultura , Escherichia coli/química , Escherichia coli/genética , Escherichia coli/metabolismo , Proteínas de Helminto/química , Proteínas de Helminto/isolamento & purificação , Histidina/química , Isopropiltiogalactosídeo/química , Chaperonas Moleculares/química , Oligopeptídeos/química , Proteínas Recombinantes/biossíntese , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/isolamento & purificação , Setaria (Nematoide)/química
18.
Protein Expr Purif ; 95: 67-76, 2014 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-24326192

RESUMO

The method of surface display allows the fusion of passenger proteins to a carrier protein displayed on the outside of bioparticles such as spores. Here, we used spores of Bacillus subtilis, the outer surface proteins CotB, CotC, and CotG as carrier and the amyQ-encoded α-amylase and GFPuv as passenger proteins. The different translational fusions were fused to two different IPTG-inducible promoters, and the regulated expression level of both passenger proteins were measured in relation to the inducer concentration added to sporulating cells. It turned out that the amount of fusion protein on the outside of spores was dependent on the amount of IPTG added, but the optimal amount of inducer varied depending on the carrier and the passenger proteins. These experiments demonstrate that a regulatable expression of passenger proteins on the surface of spores is possible. This will help to adjust the amount of any passenger protein to that needed for specific purposes.


Assuntos
Bacillus subtilis/genética , Isopropiltiogalactosídeo/química , Regiões Promotoras Genéticas/genética , Proteínas Recombinantes de Fusão/genética , Proteínas Recombinantes de Fusão/metabolismo , Esporos Bacterianos/química , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Escherichia coli/genética , Isopropiltiogalactosídeo/metabolismo , Engenharia de Proteínas , Proteínas Recombinantes de Fusão/química , Esporos Bacterianos/metabolismo
19.
Sheng Wu Gong Cheng Xue Bao ; 29(6): 726-34, 2013 Jun.
Artigo em Chinês | MEDLINE | ID: mdl-24063233

RESUMO

Constructing robust gene circuits is a fundamental work for synthetic biology. Bacteria with suicide gene circuit based on quorum-sensing will kill themselves in a controllable pattern upon certain cell density. In the media of different IPTG inducer concentration, we observed the growth and suicidal behavior of the Escherichia coli. Top10F' with such gene circuit, screened the mutants and determined their mutated loci. The results show that, with higher IPTG concentration, the more wild type bacteria were killed; as well the mutants emerged earlier and spread over the population more quickly. The sequence of plasmids in those mutants revealed that a transposon inserted into the luxR gene and therefore disrupted Quorum-Sensing of these individuals. Furthermore, the insertion sequence of the plasmid can solely result in the mutants escaping from suicide.


Assuntos
Escherichia coli/crescimento & desenvolvimento , Escherichia coli/genética , Genes Sintéticos/genética , Genes Transgênicos Suicidas , Mutação , Percepção de Quorum/genética , Meios de Cultura/química , Elementos de DNA Transponíveis/genética , Regulação Bacteriana da Expressão Gênica , Isopropiltiogalactosídeo/química , Proteínas Repressoras/genética , Transativadores/genética
20.
Bioresour Technol ; 146: 379-385, 2013 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-23948275

RESUMO

In this study, the effects of temperature, IPTG (Isopropyl ß-D-1-thiogalactopyranoside) concentration, and osmolytes (proline, K-glutamate, and betaine) on cell growth and soluble pullulanase productivity of recombinant Escherichia coli were investigated. The yield of soluble pullulanase was found to be enhanced with decrease in cultivation temperature, lower IPTG concentration, and betaine supplementation in a shake flask. In addition, a modified two-stage feeding strategy was proposed and applied in a 3-L fermentor supplied with 20mM betaine, which achieved a dry cell weight of 59.3 g L(-1). Through this cultivation approach at 25 °C, the total soluble activity of pullulanase reached 963.9 U mL(-1), which was 8.3-fold higher than that observed without addition of betaine at 30 °C (115.8 U mL(-1)). The higher expression of soluble pullulanase in a scalable semisynthetic medium showed the potential of the proposed process for the industrial production of soluble enzyme.


Assuntos
Reatores Biológicos , Escherichia coli/metabolismo , Glicosídeo Hidrolases/biossíntese , Microbiologia Industrial/métodos , Betaína/química , Biomassa , Meios de Cultura/química , Eletroforese em Gel de Poliacrilamida , Enzimas/química , Ácido Glutâmico/química , Glicerol/química , Isopropiltiogalactosídeo/química , Prolina/química , Solubilidade , Temperatura , Fatores de Tempo
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