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1.
Nat Commun ; 14(1): 2772, 2023 05 15.
Artigo em Inglês | MEDLINE | ID: mdl-37188719

RESUMO

The use of gaseous and air-captured CO2 for technical biosynthesis is highly desired, but elusive so far due to several obstacles including high energy (ATP, NADPH) demand, low thermodynamic driving force and limited biosynthesis rate. Here, we present an ATP and NAD(P)H-free chemoenzymatic system for amino acid and pyruvate biosynthesis by coupling methanol with CO2. It relies on a re-engineered glycine cleavage system with the NAD(P)H-dependent L protein replaced by biocompatible chemical reduction of protein H with dithiothreitol. The latter provides a higher thermodynamic driving force, determines the reaction direction, and avoids protein polymerization of the rate-limiting enzyme carboxylase. Engineering of H protein to effectively release the lipoamide arm from a protected state further enhanced the system performance, achieving the synthesis of glycine, serine and pyruvate at g/L level from methanol and air-captured CO2. This work opens up the door for biosynthesis of amino acids and derived products from air.


Assuntos
NAD , Ácido Pirúvico , Ácido Pirúvico/metabolismo , NAD/metabolismo , Aminoácidos , Dióxido de Carbono , Metanol , Trifosfato de Adenosina
2.
Environ Microbiol ; 24(10): 4885-4898, 2022 10.
Artigo em Inglês | MEDLINE | ID: mdl-35706134

RESUMO

Bacteria that successfully adapt to different substrates and environmental niches within the lung and overcome the immune defence can cause serious lung infections. Such infections are generally complex, and recognized as polymicrobial in nature. Both Pseudomonas aeruginosa and Streptococcus pneumoniae can cause chronic lung infections and were both detected in cystic fibrosis (CF) lung at different stages. In this study, single and dual species cultures of Pseudomonas aeruginosa and Streptococcus pneumoniae were studied under well-controlled planktonic growth conditions. Under pH-controlled conditions, both species apparently benefited from the presence of the other. In co-culture with P. aeruginosa, S. pneumoniae grew efficiently under aerobic conditions, whereas in pure S. pneumoniae culture, growth inhibition occurred in bioreactors with dissolved oxygen concentrations above the microaerobic range. Lactic acid and acetoin that are produced by S. pneumoniae were efficiently utilized by P. aeruginosa. In pH-uncontrolled co-cultures, the low pH triggered by S. pneumoniae assimilation of glucose and lactic acid production negatively affected the growth of both strains. Nevertheless, ammonia production improved significantly, and P. aeruginosa growth dominated at later growth stages. This study revealed unreported metabolic interactions of two important pathogenic microorganisms and shed new lights into pathophysiology of bacterial lung infection.


Assuntos
Fibrose Cística , Infecções por Pseudomonas , Acetoína/metabolismo , Amônia/metabolismo , Biofilmes , Fibrose Cística/microbiologia , Cadeia Alimentar , Glucose/metabolismo , Humanos , Ácido Láctico/metabolismo , Pulmão/microbiologia , Oxigênio/metabolismo , Infecções por Pseudomonas/microbiologia , Pseudomonas aeruginosa/metabolismo , Streptococcus pneumoniae
3.
ACS Synth Biol ; 10(4): 799-809, 2021 04 16.
Artigo em Inglês | MEDLINE | ID: mdl-33729768

RESUMO

Formaldehyde (HCHO) is a reactive one-carbon compound that is interesting for biosynthesis. The assimilation of HCHO depends on the catalysis of aldolase. Here, we present a novel synthetic pathway in E. coli to convert HCHO and ethanol into 1,3-propanediol (PDO) using a deoxyribose-5-phosphate aldolase (DERA). DERA condenses HCHO and acetaldehyde to form 3-hydroxypropionaldehyde, the direct precursor of PDO formation. This new pathway opens up the possibility to synthesize an appealing C3 compound from a C1 compound and a C2 compound without carbon loss in contrast to all the other known PDO synthetic pathways where typically 30-50% of the carbons are lost as CO2 and other byproducts. The pathway is successfully demonstrated by elaborating three metabolic modules. First, DERA from Thermotoga maritima was found to be efficient for the aldol condensation and PDO production module. For the module of acetaldehyde supply from ethanol, an alcohol dehydrogenase from Hansenula polymorpha was selected. For the HCHO supply module, the control of HCHO concentration and its utilization were shown to be important for achieving the assimilation of HCHO in recombinant E. coli cells. By deleting the gene frmA for endogenous conversion of HCHO to formate and controlling HCHO at a level of about 0.6 mM, the concentration and yield of PDO were increased from initially 5.67 mM (0.43 g/L) and 0.057 mol/mol to 17.35 mM (1.32 g/L) and 0.096 mol/mol in bioconversion of ethanol and HCHO with resting E. coli cells. Further engineering of DERA and the HCHO supply module is necessary to realize the potential of this promising metabolic pathway.


Assuntos
Etanol/metabolismo , Formaldeído/metabolismo , Frutose-Bifosfato Aldolase/metabolismo , Propilenoglicóis/metabolismo , Aldeído Liases/metabolismo , Escherichia coli/metabolismo
4.
J Biol Eng ; 14: 15, 2020.
Artigo em Inglês | MEDLINE | ID: mdl-32467727

RESUMO

Glycine cleavage system (GCS) occupies a key position in one-carbon (C1) metabolic pathway and receives great attention for the use of C1 carbons like formate and CO2 via synthetic biology. In this work, we demonstrate that formaldehyde exists as a substantial byproduct of the GCS reaction cycle. Three causes are identified for its formation. First, the principal one is the decomposition of N 5 ,N 10 -methylene-tetrahydrofolate (5,10-CH2-THF) to form formaldehyde and THF. Increasing the rate of glycine cleavage promotes the formation of 5,10-CH2-THF, thereby increasing the formaldehyde release rate. Next, formaldehyde can be produced in the GCS even in the absence of THF. The reason is that T-protein of the GCS can degrade methylamine-loaded H-protein (Hint) to formaldehyde and ammonia, accompanied with the formation of dihydrolipoyl H-protein (Hred), but the reaction rate is less than 0.16% of that in the presence of THF. Increasing T-protein concentration can speed up the release rate of formaldehyde by Hint. Finally, a certain amount of formaldehyde can be formed in the GCS due to oxidative degradation of THF. Based on a formaldehyde-dependent aldolase, we elaborated a glycine-based one carbon metabolic pathway for the biosynthesis of 1,3-propanediol (1,3-PDO) in vitro. This work provides quantitative data and mechanistic understanding of formaldehyde formation in the GCS and a new biosynthetic pathway of 1,3-PDO.

5.
ACS Synth Biol ; 8(11): 2483-2493, 2019 11 15.
Artigo em Inglês | MEDLINE | ID: mdl-31603652

RESUMO

Formaldehyde (HCHO) is an important intermediate in the metabolism of one-carbon (C1) compounds such as methanol, formate, and methane. The ribulose monophosphate (RuMP) pathway is the most-studied HCHO assimilation route and the 3-hexulose-6-phosphate synthase (Hps) plays an important role for HCHO fixation. In this study, we proposed and selected a pyruvate-dependent aldolase to channel HCHO into 2-keto-4-hydroxybutyrate as an important intermediate for biosynthesis. By combining this reaction with three further enzymes we demonstrated a pyruvate-based C1 metabolic pathway for biosynthesis of the appealing compound 1,3-propanediol (1,3-PDO). This novel pathway is first confirmed in vitro using HCHO and pyruvate as substrates. It is then demonstrated in vivo in E. coli for 1,3-PDO production from HCHO and methanol with glucose as a cosubstrate. This de novo pathway has several decisive advantages over the known metabolic pathways for 1,3-PDO: (1) C1 carbon is directly channeled into a precursor of 1,3-PDO; (2) the use of pyruvate as an acceptor of HCHO is glycerol-independent, circumventing thus the need of coenzyme B12 as cofactor for glycerol dehydration; (3) the pathway is much shorter and more simple than the recently proposed l-homoserine-dependent pathway, thus avoiding complicated regulations involving precursors for essential amino acids. In addition to proof-of-concept we further improved the host strain by deleting a gene (frmA) responsible for the conversion of HCHO to formate, thereby increasing the production of 1,3-PDO from 298.3 ± 11.4 mg/L to 508.3 ± 9.1 mg/L and from 3.8 mg/L to 32.7 ± 0.8 mg/L with HCHO and methanol as cosubstrate of glucose fermentation, respectively. This work is the first study demonstrating a genetically engineered E. coli that can directly use HCHO or methanol for the synthesis of 2-keto-4-hydroxybutyrate and its further conversion to 1,3-PDO.


Assuntos
Escherichia coli/metabolismo , Formaldeído/metabolismo , Frutose-Bifosfato Aldolase/metabolismo , Hidroxibutiratos/metabolismo , Cetonas/metabolismo , Metanol/metabolismo , Propilenoglicóis/metabolismo , Aldeído Oxirredutases/deficiência , Aldeído Oxirredutases/genética , Proteínas de Escherichia coli/genética , Proteínas de Escherichia coli/metabolismo , Formaldeído/química , Frutose-Bifosfato Aldolase/genética , Glucose/metabolismo , Hidroxibutiratos/química , Cetonas/química , Cinética , Redes e Vias Metabólicas , Metanol/química , Propilenoglicóis/química , Ácido Pirúvico/metabolismo , Especificidade por Substrato
6.
Microb Cell Fact ; 16(1): 64, 2017 Apr 19.
Artigo em Inglês | MEDLINE | ID: mdl-28424096

RESUMO

BACKGROUND: Clostridium pasteurianum as an emerging new microbial cell factory can produce both n-butanol (BuOH) and 1,3-propanediol (1,3-PDO), and the pattern of product formation changes significantly with the composition of the culture medium. Among others iron content in the medium was shown to strongly affect the products selectivity. However, the mechanism behind this metabolic regulation is still unclear. For a better understanding of such metabolic regulation and for process optimization, we carried out fermentation experiments under either iron excess or iron limitation conditions, and performed metabolic, stoichiometric and proteomic analyses. RESULTS: 1,3-PDO is most effectively produced under iron limited condition (Fe-), whereas 1,3-PDO and BuOH were both produced under iron rich condition (Fe+). With increased iron availability the BuOH/1,3-PDO ratio increased significantly from 0.27 mol/mol (at Fe-) to 1.4 mol/mol (at Fe+). Additionally, hydrogen production was enhanced significantly under Fe+ condition. Proteomic analysis revealed differentiated expression of many proteins including several ones of the central carbon metabolic pathway. Among others, pyruvate: ferredoxin oxidoreductase, hydrogenases, and several electron transfer flavoproteins was found to be strongly up-regulated under Fe+ condition, pointing to their strong involvement in the regeneration of the oxidized form of ferredoxin, and consequently their influences on the product selectivity in C. pasteurianum. Of particular significance is the finding that H2 formation in C. pasteurianum is coupled to the ferredoxin-dependent butyryl-CoA dehydrogenase catalyzed reaction, which significantly affects the redox balance and thus the product selectivity. CONCLUSIONS: The metabolic, stoichiometric and proteomic results clearly show the key roles of hydrogenases and ferredoxins dependent reactions in determining the internal redox balance and hence product selectivity. Not only the NADH pool but also the regulation of the ferredoxin pool could explain such product variation under different iron conditions.


Assuntos
Clostridium/efeitos dos fármacos , Clostridium/metabolismo , Glicerol/metabolismo , Ferro/farmacologia , 1-Butanol/metabolismo , Clostridium/genética , Clostridium/crescimento & desenvolvimento , Meios de Cultura/química , Fermentação , Ferredoxinas/genética , Ferredoxinas/metabolismo , Flavoproteínas/genética , Hidrogênio/metabolismo , Hidrogenase/genética , Redes e Vias Metabólicas , Metabolômica/métodos , Oxirredução , Propilenoglicóis/metabolismo , Proteômica/métodos , Piruvato Sintase/genética
7.
BMC Genomics ; 15: 362, 2014 May 12.
Artigo em Inglês | MEDLINE | ID: mdl-24884510

RESUMO

BACKGROUND: Carolacton is a newly identified secondary metabolite causing altered cell morphology and death of Streptococcus mutans biofilm cells. To unravel key regulators mediating these effects, the transcriptional regulatory response network of S. mutans biofilms upon carolacton treatment was constructed and analyzed. A systems biological approach integrating time-resolved transcriptomic data, reverse engineering, transcription factor binding sites, and experimental validation was carried out. RESULTS: The co-expression response network constructed from transcriptomic data using the reverse engineering algorithm called the Trend Correlation method consisted of 8284 gene pairs. The regulatory response network inferred by superimposing transcription factor binding site information into the co-expression network comprised 329 putative transcriptional regulatory interactions and could be classified into 27 sub-networks each co-regulated by a transcription factor. These sub-networks were significantly enriched with genes sharing common functions. The regulatory response network displayed global hierarchy and network motifs as observed in model organisms. The sub-networks modulated by the pyrimidine biosynthesis regulator PyrR, the glutamine synthetase repressor GlnR, the cysteine metabolism regulator CysR, global regulators CcpA and CodY and the two component system response regulators VicR and MbrC among others could putatively be related to the physiological effect of carolacton. The predicted interactions from the regulatory network between MbrC, known to be involved in cell envelope stress response, and the murMN-SMU_718c genes encoding peptidoglycan biosynthetic enzymes were experimentally confirmed using Electro Mobility Shift Assays. Furthermore, gene deletion mutants of five predicted key regulators from the response networks were constructed and their sensitivities towards carolacton were investigated. Deletion of cysR, the node having the highest connectivity among the regulators chosen from the regulatory network, resulted in a mutant which was insensitive to carolacton thus demonstrating not only the essentiality of cysR for the response of S. mutans biofilms to carolacton but also the relevance of the predicted network. CONCLUSION: The network approach used in this study revealed important regulators and interactions as part of the response mechanisms of S. mutans biofilm cells to carolacton. It also opens a door for further studies into novel drug targets against streptococci.


Assuntos
Biofilmes/efeitos dos fármacos , Macrolídeos/farmacologia , Streptococcus mutans/fisiologia , Sequência de Aminoácidos , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Sítios de Ligação , Cisteína/metabolismo , Redes Reguladoras de Genes/efeitos dos fármacos , Ligação Genética , Genoma Bacteriano , Glutamina/metabolismo , Dados de Sequência Molecular , Pirimidinas/metabolismo , Alinhamento de Sequência , Streptococcus mutans/genética , Fatores de Transcrição/genética , Fatores de Transcrição/metabolismo , Transcrição Gênica/efeitos dos fármacos , Transcriptoma
8.
J Biotechnol ; 161(4): 391-401, 2012 Nov 15.
Artigo em Inglês | MEDLINE | ID: mdl-22951293

RESUMO

In vitro enzymatic activity highly depends on the reaction medium. One of the most important parameters is the buffer used to keep the pH stable. The buffering compound prevents a severe pH-change and therefore a possible denaturation of the enzyme. However buffer agents can also have negative effects on the enzymatic activity, such as competitive substrate inhibition. We assess this effect with a computational approach based on a protein-ligand docking method and the HYDE scoring function. Our method predicts competitive binding of the buffer compound to the active site of the enzyme. Using data from literature and new experimental data, the procedure is evaluated on nine different enzymatic reactions. The method predicts buffer-enzyme interactions and is able to score these interactions with the correct trend of enzymatic activities. Using the new method, possible buffers can be selected or discarded prior to laboratory experiments.


Assuntos
Álcool Desidrogenase/química , Frutose-Bifosfatase/química , Glucose-6-Fosfato Isomerase/química , Glucosefosfato Desidrogenase/química , Ligação Competitiva , Soluções Tampão , Biologia Computacional/métodos , Ligantes
9.
Bioprocess Biosyst Eng ; 31(6): 569-77, 2008 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-18253755

RESUMO

A simple kinetic model is developed to describe the dynamic behavior of myeloma cell growth and cell metabolism. Glucose, glutamine as well as lysine are considered as growth limiting substrates. The cell growth was restricted as soon as the extracellular lysine is exhausted and then intracellular lysine becomes a growth limiting substrate. In addition, a metabolic regulator model together with the Monod model is used to deal with the growth lag phase after inoculation or feeding. By using these models, concentrations of substrates and metabolites, as well as densities of viable and dead cells are quantitatively described. One batch cultivation and two fed-batch cultivations with pulse feeding of nutrients are used to validate the model.


Assuntos
Bioquímica/métodos , Técnicas de Cultura de Células/métodos , Lisina/química , Mieloma Múltiplo/metabolismo , Reatores Biológicos , Linhagem Celular Tumoral , Glucose/química , Glutamina/química , Humanos , Cinética , Modelos Químicos , Modelos Estatísticos , Modelos Teóricos , Mieloma Múltiplo/patologia , Fatores de Tempo
10.
J Biotechnol ; 132(4): 342-52, 2007 Dec 01.
Artigo em Inglês | MEDLINE | ID: mdl-17889392

RESUMO

The function unknown gene PA2384 of Pseudomonas aeruginosa PAO1 has been previously shown dramatically responsive to iron limitation. In the present study, a bioinformatics analysis showed that PA2384 has a weak similarity to the N-terminus DNA-binding domain of Fur, the well-known ferric uptake regulator. To investigate the potential function of PA2384 in iron regulation a P. aeruginosa PAO1 recombinant (pUCP20::PA2384) over-expressing PA2384 and a PA2384 disrupted mutant PAO1*PA2384 were constructed. Physiological characterization showed that the knockout mutant had a longer lag phase. Genome-scale transcriptional profiles at different growth stages were compared between the wild type and the DeltaPA2384 mutant grown under iron-limiting conditions. The expression of more than 350 genes was affected by the knockout of PA2384. Among them, 71 genes involved in iron uptake were significantly down-regulated in the absence of PA2384. One hundred two quorum sensing (QS) dependent genes displayed differential transcriptions, including genes involved in the biosynthesis of some important virulence factors such as pyocyanin, rhamnolipids and hydrogen cyanide. The transcription of genes responsible for the synthesis of Pseudomonas quinolone signal (PQS) was greatly enhanced by the knockout of PA2384. Furthermore, the knockout of PA2384 also resulted in an altered expression of genes involved in electron transfer, central metabolism, phosphorus starvation and translation. It implies that PA2384 might affect more physiological processes than iron acquisition in P. aeruginosa.


Assuntos
Regulação Bacteriana da Expressão Gênica/genética , Ferro/metabolismo , Pseudomonas aeruginosa/genética , Sideróforos , Perfilação da Expressão Gênica , Regulação Bacteriana da Expressão Gênica/fisiologia , Dados de Sequência Molecular , Pseudomonas aeruginosa/metabolismo , Análise de Sequência de Proteína , Sideróforos/genética , Sideróforos/metabolismo , Transcrição Gênica
11.
Biotechnol Prog ; 23(5): 1198-209, 2007.
Artigo em Inglês | MEDLINE | ID: mdl-17691814

RESUMO

A multi-staged population balance model is proposed to describe the cell cycle dynamics of myeloma cell cultivation. In this model, the cell cycle is divided into three stages, i.e., G1, S, and G2M phases. Both DNA content and cell volume are used to differentiate each cell from other cells of the population. The probabilities of transition from G1 to S and division of G2M are assumed to be dependent on cell volume, and transition probability from S to G2M is determined by DNA content. The model can be used to simulate the dynamics of DNA content and cell volume distributions, phase fractions, and substrate and byproduct concentrations, as well as cell densities. Measurements from myeloma cell cultivations, especially the FACS data with respect to DNA distribution and cell fractions in different stages, are employed for model validation.


Assuntos
Ciclo Celular , DNA de Neoplasias/metabolismo , Modelos Biológicos , Mieloma Múltiplo/patologia , Mieloma Múltiplo/fisiopatologia , Animais , Linhagem Celular Tumoral , Proliferação de Células , Simulação por Computador , Humanos , Cinética
12.
Microsc Res Tech ; 70(2): 171-8, 2007 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-17177276

RESUMO

Multiple immunofluorescent staining is a powerful strategy for visualizing the spatial and temporal relationship between antigens, cell populations, and tissue components in histological sections. To segment different cell populations from the multicolor image generated by immunostaining based on color addition theory, a systems approach is proposed for automatic segmentation of six colors. After image acquisition and processing, images are automatically segmented with the proposed approach and six-pseudo channels for individual or colocalized fluorescent dye are generated to distinguish different cell types. The principle of this approach is the classification of each pixel into one of six colors (red, green, blue, yellow, magenta, and cyan) by choosing the minimal angular deviation between the RGB vector of the given pixel and six classically defined edge vectors. In the present infection studies of Listeria monocytogenes, the new multicolor staining methods based on the color addition were applied and the proposed color segmentation was performed for multicolor analysis. Multicolor analysis was accomplished to study the migration and interaction of Listeria and different cell subpopulations such as CD4CD25 double positive T regulatory cells; we also visualized simultaneously the B cells, T cells, dendritic cells, macrophages, and Listeria in another experiment. After Listeria infection, ERTR9 macrophages and dendritic cells formed cluster with Listeria in the infection loci. The principle of color addition and the systems approach for segmentation may be widely applicable in infection and immunity studies requiring multicolor imaging and analysis. This approach can also be applied for image analysis in the multicolor in vivo imaging, multicolor FISH or karyotyping or other studies requiring multicolor analysis.


Assuntos
Listeria monocytogenes , Listeriose/patologia , Animais , Linfócitos B/imunologia , Linfócitos B/patologia , Complexo CD3/imunologia , Células Dendríticas/imunologia , Células Dendríticas/patologia , Feminino , Corantes Fluorescentes , Processamento de Imagem Assistida por Computador , Listeriose/microbiologia , Macrófagos/imunologia , Macrófagos/patologia , Camundongos , Camundongos Endogâmicos BALB C , Microscopia Confocal , Baço/imunologia , Baço/patologia , Linfócitos T/imunologia , Linfócitos T/patologia
13.
Biotechnol Appl Biochem ; 46(Pt 2): 85-95, 2007 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-16800813

RESUMO

A macrokinetic model for a myeloma cell line is proposed. The model describes the dynamic balances of lactate, alanine, ATP and NADH during the metabolsim of glucose, glutamine and other amino acids. The metabolic pathways mainly include glycolysis, glutaminolysis, the trcicarboxylic acid cycle, the formation and utilization of amino acids, the respiratory chain, cell growth and cell death. The metabolic shift of glucose is especially considered because of a change in the rate of glycolysis. Thus the model functions in three modes to describe the behaviour of the myeloma cell line. On the basis of this model the macrokinetic bioreaction rates such as the specific substrate consumption rate, the specific growth rate, the specific acetyl-CoA formation rate, as well as the specific oxygen uptake rate, are estimated. The specific substrate consumption rate and the specific growth rate are then coupled into a bioreactor model such that the key variables, i.e., the cell density, the substrate and metabolite concentrations, are obtained. Experiments with batch and fed-batch cultures of a myeloma cell line (X63-Ag8.653) were used to validate the model. The prediction of the model was simulated by the rolling prediction approach.


Assuntos
Metabolismo Energético , Modelos Biológicos , Complexos Multienzimáticos/metabolismo , Mieloma Múltiplo/metabolismo , Proteínas de Neoplasias/metabolismo , Transdução de Sinais , Linhagem Celular Tumoral , Simulação por Computador , Humanos , Cinética
14.
Microbiology (Reading) ; 151(Pt 4): 1127-1138, 2005 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-15817780

RESUMO

The expression of the transcriptional regulatory protein LasR, a main component of the quorum-sensing (QS) system in Pseudomonas aeruginosa, was recently found to be sensitive to several environmental factors in addition to its dependency on cell density. However, the inherent effects of the different factors have seldom been separately demonstrated due to concurrent changes of culture conditions in typical experimental settings. Furthermore, the interplays of the different factors are unknown. In this work, the effects and interplay of iron concentration and dissolved oxygen tension (pO(2)) on the expression of lasR in P. aeruginosa were studied in defined growth media with varied iron concentration and pO(2) values in computer-controlled batch and continuous cultures. beta-Galactosidase activity in a recombinant P. aeruginosa PAO1 (NCCB 2452) strain with a lasRp-lacZ fusion was used as a reporter for lasR expression. In batch culture with a constant pO(2) approximately 10 % air saturation, a strong correlation between the exhaustion of iron and the increase of lasR expression was observed. In continuous culture with nearly constant cell density but varied pO(2) values, lasR expression generally increased with increasing oxidative stress with the exception of growth under O(2)-limited conditions (pO(2) approximately equal to 0 %). Under O(2) limitation, the expression of lasR strongly depended on the concentration of iron. It showed a nearly twofold increase in cells grown under iron deprivation in comparison with cells grown in iron-replete conditions and reached the expression level seen at high oxidative stress. A preliminary proteomic analysis was carried out for extracellular proteins in samples from batch cultures grown under different iron concentrations. Several of the extracellular proteins (e.g. AprA, LasB, PrpL) which were up-regulated under iron-limited conditions were found to be QS regulated proteins. Thus, this study clearly shows the links between QS and genes involved in iron and oxygen regulation in P. aeruginosa.


Assuntos
Proteínas de Bactérias/metabolismo , Proteínas de Ligação a DNA/metabolismo , Ferro/metabolismo , Pseudomonas aeruginosa/metabolismo , Transativadores/metabolismo , Proteínas de Bactérias/genética , Contagem de Colônia Microbiana , Proteínas de Ligação a DNA/genética , Regulação Bacteriana da Expressão Gênica , Genes Bacterianos , Estresse Oxidativo , Oxigênio/metabolismo , Proteoma , Pseudomonas aeruginosa/genética , Pseudomonas aeruginosa/crescimento & desenvolvimento , Transativadores/genética
15.
BMC Evol Biol ; 4: 36, 2004 Sep 29.
Artigo em Inglês | MEDLINE | ID: mdl-15456522

RESUMO

BACKGROUND: Quorum sensing is a process of bacterial cell-to-cell communication involving the production and detection of extracellular signaling molecules called autoinducers. Recently, it has been proposed that autoinducer-2 (AI-2), a furanosyl borate diester derived from the recycling of S-adenosyl-homocysteine (SAH) to homocysteine, serves as a universal signal for interspecies communication. RESULTS: In this study, 138 completed genomes were examined for the genes involved in the synthesis and detection of AI-2. Except for some symbionts and parasites, all organisms have a pathway to recycle SAH, either using a two-step enzymatic conversion by the Pfs and LuxS enzymes or a one-step conversion using SAH-hydrolase (SahH). 51 organisms including most Gamma-, Beta-, and Epsilonproteobacteria, and Firmicutes possess the Pfs-LuxS pathway, while Archaea, Eukarya, Alphaproteobacteria, Actinobacteria and Cyanobacteria prefer the SahH pathway. In all 138 organisms, only the three Vibrio strains had strong, bidirectional matches to the periplasmic AI-2 binding protein LuxP and the central signal relay protein LuxU. The initial two-component sensor kinase protein LuxQ, and the terminal response regulator luxO are found in most Proteobacteria, as well as in some Firmicutes, often in several copies. CONCLUSIONS: The genomic analysis indicates that the LuxS enzyme required for AI-2 synthesis is widespread in bacteria, while the periplasmic binding protein LuxP is only present in Vibrio strains. Thus, other organisms may either use components different from the AI-2 signal transduction system of Vibrio strains to sense the signal of AI-2, or they do not have such a quorum sensing system at all.


Assuntos
Genoma , Homosserina/análogos & derivados , Homosserina/fisiologia , Filogenia , Transdução de Sinais/genética , Adenosil-Homocisteinase/metabolismo , Animais , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Proteínas de Bactérias/fisiologia , Liases de Carbono-Enxofre , Bases de Dados de Proteínas , Genoma Bacteriano , Genoma Fúngico , Genoma Humano , Genoma de Planta , Homocisteína/metabolismo , Homosserina/metabolismo , Humanos , Lactonas/metabolismo , Metionina/metabolismo , Camundongos , Ratos
16.
Microbiology (Reading) ; 149(Pt 9): 2627-2634, 2003 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-12949186

RESUMO

Pseudomonas aeruginosa PAO1 was recently found to exhibit two remarkable physiological responses to oxidative stress: (1) a strong reduction in the efficiency of oxygen transfer from the gas phase into the liquid phase, thus causing oxygen limitation in the culture and (2) formation of a clear polysaccharide capsule on the cell surface. In this work, it has been shown that the iron concentration in the culture plays a crucial role in evoking these phenomena. The physiological responses of two P. aeruginosa PAO1 isolates (NCCB 2452 and ATCC 15692) were examined in growth media with varied iron concentrations. In a computer-controlled bioreactor cultivation system for controlled dissolved oxygen tension (pO2), a strong correlation between the exhaustion of iron and the onset of oxygen limitation was observed. The oxygen transfer rate of the culture, characterized by the volumetric oxygen transfer coefficient, kLa, significantly decreased under iron-limited conditions. The formation of alginate and capsule was more strongly affected by iron concentration than by oxygen concentration. The reduction of the oxygen transfer rate and the subsequent oxygen limitation triggered by iron deficiency may represent a new and efficient way for P. aeruginosa PAO1 to adapt to growth conditions of iron limitation. Furthermore, the secretion of proteins into the culture medium was strongly enhanced by iron limitation. The formation of the virulence factor elastase and the iron chelators pyoverdine and pyochelin also significantly increased under iron-limited conditions. These results have implications for lung infection of cystic fibrosis patients by P. aeruginosa in view of the prevalence of iron limitation at the site of infection and the respiratory failure leading to death.


Assuntos
Ferro/metabolismo , Lipopolissacarídeos/biossíntese , Oxigênio/metabolismo , Pseudomonas aeruginosa/patogenicidade , Virulência , Pseudomonas aeruginosa/fisiologia
17.
Biotechnol Bioeng ; 81(7): 848-54, 2003 Mar 30.
Artigo em Inglês | MEDLINE | ID: mdl-12557318

RESUMO

The promoter activity of the human c-fos and human cytomegalovirus (CMV) immediate early promoter was compared in transient and stable transfection experiments with six cell lines of mouse, human, and hamster origin which are all of commercial importance. The c-fos promoter was 1.8-5.6-fold stronger than the CMV promoter in BHK-A, BHK-B, CHO-DHFR(-), and mouse NIH-3T3 in stable transfectants and less effective in mouse myeloma or human 293 cells, suggesting a new transcriptional control element for high-level expression and protein production in mammalian cells. The induction profiles determined in the presence and absence of serum are dependent on the cell line used. Induction levels of up to 8-fold could be achieved in preselected cell pools.


Assuntos
Citomegalovirus/genética , Regulação da Expressão Gênica/genética , Genes fos/genética , Proteínas Luminescentes/biossíntese , Transfecção/métodos , Células 3T3/citologia , Células 3T3/metabolismo , Animais , Antígenos Virais/genética , Células CHO/citologia , Células CHO/metabolismo , Linhagem Celular , Cricetinae/genética , Proteínas de Fluorescência Verde , Humanos , Proteínas Imediatamente Precoces/genética , Rim/citologia , Rim/embriologia , Rim/metabolismo , Proteínas Luminescentes/genética , Camundongos/genética , Regiões Promotoras Genéticas/genética , Proteínas Recombinantes de Fusão/biossíntese , Proteínas Recombinantes de Fusão/genética , Especificidade da Espécie
18.
Microbiology (Reading) ; 148(Pt 10): 3195-3202, 2002 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-12368453

RESUMO

Pseudomonas aeruginosa PAO1 was found to exhibit several remarkable physiological responses to oxidative stress upon its growth in a computer-controlled suspension culture. First, it strongly reduced the transfer rate of oxygen from the gas into the liquid phase, causing oxygen-limited or microaerophilic conditions in the culture after a short period of cultivation, even at high aeration rates with pure oxygen. Second, PAO1 that was previously classified as 'non-mucoid' formed a clear polysaccharide capsule on the cell surface (mucoid phenotype) under oxidative-stress conditions. Third, the strain showed a reduced growth rate and a longer lag phase under high oxygen tension. Finally, P. aeruginosa PAO1 released a high amount of proteins into the culture broth. The release of some virulence factors by PAO1, such as elastase, was significantly enhanced or only occurred under microaerobic conditions (i.e. dissolved oxygen tension value around 1% of air saturation). Hence, it is concluded that P. aeruginosa PAO1 prefers microaerobic conditions for growth and for the formation of some of its virulence factors. PAO1 can create such growth conditions by at least two mechanisms: (i) blockage of the transfer of oxygen and (ii) formation of a polysaccharide capsule on the cell surface. It is postulated that the blockage of oxygen transfer may play an important role in the defence of this pathogen against reactive oxygen intermediates.


Assuntos
Resposta ao Choque Térmico , Estresse Oxidativo , Pseudomonas aeruginosa/fisiologia , Aerobiose , Anaerobiose , Cápsulas Bacterianas/metabolismo , Proteínas de Bactérias/metabolismo , Técnicas Bacteriológicas , Meios de Cultura , Fibrose Cística/microbiologia , Fibrose Cística/fisiopatologia , Humanos , Oxigênio/farmacologia , Infecções por Pseudomonas/microbiologia , Infecções por Pseudomonas/fisiopatologia , Pseudomonas aeruginosa/crescimento & desenvolvimento
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