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1.
Opt Express ; 32(12): 20459-20470, 2024 Jun 03.
Artigo em Inglês | MEDLINE | ID: mdl-38859427

RESUMO

When a hollow core fiber is drawn, the core and cladding holes within the internal cane geometry are pressurized with an inert gas to enable precise control over the internal microstructure of the fiber and counteract surface tension forces. Primarily by considering the temperature drop as the fiber passes through the furnace and the geometrical transformation of the internal microstructure from preform-to-fiber, we recently established that the gas pressure within the final 'as-drawn' fiber is substantially below atmospheric pressure. We have also established that slight changes in the gas refractive index within the core and surrounding cladding holes induced by changes in gas pressure are sufficient to significantly affect both the modality and loss of the fiber. Here we demonstrate, through both simulations and experimental measurements, that the combination of these effects leads to transient changes in the fiber's attenuation when the fibers are opened to atmosphere post-fabrication. It is important to account for this phenomenon for accurate fiber characterization, particularly when long lengths of fiber are drawn where it could take many weeks for every part of the internal microstructure to reach atmospheric pressure.

2.
Sensors (Basel) ; 24(8)2024 Apr 12.
Artigo em Inglês | MEDLINE | ID: mdl-38676099

RESUMO

Label-free and multiphoton micro-endoscopy can transform clinical histopathology by providing an in situ tool for diagnostic imaging and surgical treatment in diseases such as cancer. Key to a multiphoton imaging-based micro-endoscopic device is the optical fiber, for distortion-free and efficient delivery of ultra-short laser pulses to the sample and effective signal collection. In this work, we study a new hollow-core (air-filled) double-clad anti-resonant fiber (DC-ARF) as a high-performance candidate for multiphoton micro-endoscopy. We compare the fiber characteristics of the DC-ARF with a single-clad anti-resonant fiber (SC-ARF) and a solid core fiber (SCF). In this work, while the DC-ARF and the SC-ARF enable low-loss (<0.2 dBm-1), close to dispersion-free excitation pulse delivery (<10% pulse width increase at 900 nm per 1 m fiber) without any induced non-linearities, the SCF resulted in spectral broadening and pulse-stretching (>2000% of pulse width increase at 900 nm per 1 m fiber). An ideal optical fiber endoscope needs to be several meters long and should enable both excitation and collection through the fiber. Therefore, we performed multiphoton imaging on endoscopy-compatible 1 m and 3 m lengths of fiber in the back-scattered geometry, wherein the signals were collected either directly (non-descanned detection) or through the fiber (descanned detection). Second harmonic images were collected from barium titanate crystals as well as from biological samples (mouse tail tendon). In non-descanned detection conditions, the ARFs outperformed the SCF by up to 10 times in terms of signal-to-noise ratio of images. Significantly, only the DC-ARF, due to its high numerical aperture (NA) of 0.45 and wide-collection bandwidth (>1 µm), could provide images in the de-scanned detection configuration desirable for endoscopy. Thus, our systematic characterization and comparison of different optical fibers under different image collection configurations, confirms and establishes the utility of DC-ARFs for high-performing label-free multiphoton imaging-based micro-endoscopy.

3.
mBio ; 14(1): e0258922, 2023 02 28.
Artigo em Inglês | MEDLINE | ID: mdl-36645302

RESUMO

Many bacteria of the genus Shewanella are facultative anaerobes able to reduce a broad range of soluble and insoluble substrates, including Fe(III) mineral oxides. Under anoxic conditions, the bacterium Shewanella oneidensis MR-1 uses a porin-cytochrome complex (Mtr) to mediate extracellular electron transfer (EET) across the outer membrane to extracellular substrates. However, it is unclear how EET prevents generating harmful reactive oxygen species (ROS) when exposed to oxic environments. The Mtr complex is expressed under anoxic and oxygen-limited conditions and contains an extracellular MtrC subunit. This has a conserved CX8C motif that inhibits aerobic growth when removed. This inhibition is caused by an increase in ROS that kills the majority of S. oneidensis cells in culture. To better understand this effect, soluble MtrC isoforms with modified CX8C were isolated. These isoforms produced increased concentrations of H2O2 in the presence of flavin mononucleotide (FMN) and greatly increased the affinity between MtrC and FMN. X-ray crystallography revealed that the molecular structure of MtrC isoforms was largely unchanged, while small-angle X-ray scattering suggested that a change in flexibility was responsible for controlling FMN binding. Together, these results reveal that FMN reduction in S. oneidensis MR-1 is controlled by the redox-active disulfide on the cytochrome surface. In the presence of oxygen, the disulfide forms, lowering the affinity for FMN and decreasing the rate of peroxide formation. This cysteine pair consequently allows the cell to respond to changes in oxygen level and survive in a rapidly transitioning environment. IMPORTANCE Bacteria that live at the oxic/anoxic interface have to rapidly adapt to changes in oxygen levels within their environment. The facultative anaerobe Shewanella oneidensis MR-1 can use EET to respire in the absence of oxygen, but on exposure to oxygen, EET could directly reduce extracellular oxygen and generate harmful reactive oxygen species that damage the bacterium. By modifying an extracellular cytochrome called MtrC, we show how preventing a redox-active disulfide from forming causes the production of cytotoxic concentrations of peroxide. The disulfide affects the affinity of MtrC for the redox-active flavin mononucleotide, which is part of the EET pathway. Our results demonstrate how a cysteine pair exposed on the surface controls the path of electron transfer, allowing facultative anaerobic bacteria to rapidly adapt to changes in oxygen concentration at the oxic/anoxic interface.


Assuntos
Cisteína , Shewanella , Espécies Reativas de Oxigênio/metabolismo , Cisteína/metabolismo , Compostos Férricos/metabolismo , Mononucleotídeo de Flavina/metabolismo , Peróxido de Hidrogênio/metabolismo , Oxirredução , Citocromos/metabolismo , Transporte de Elétrons , Shewanella/genética , Shewanella/metabolismo , Flavinas/metabolismo , Oxigênio/metabolismo , Dissulfetos/metabolismo
4.
Opt Express ; 30(24): 43317-43329, 2022 Nov 21.
Artigo em Inglês | MEDLINE | ID: mdl-36523032

RESUMO

We demonstrate recent progress in the development of a Raman gas sensor using a single cladding ring anti-resonant hollow core micro-structured optical fiber (HC-ARF) and a low power pump source. The HC-ARF was designed specifically for low attenuation and wide bandwidth in the visible spectral region and provided low loss at both the pump wavelength (532 nm) and Stokes wavelengths up to a Raman shift of 5000 cm-1. A novel selective core pressurization scheme was also implemented to further reduce the confinement loss, improving the Raman signal enhancement by a factor of 1.9 compared to a standard fiber filling scheme. By exploiting longer lengths of fiber, direct detection of both methane and hydrogen at concentrations of 5 and 10 ppm respectively is demonstrated and a noise equivalent limit-of-detection of 0.15 ppm is calculated for methane.

5.
Int J Mol Sci ; 23(16)2022 Aug 15.
Artigo em Inglês | MEDLINE | ID: mdl-36012437

RESUMO

Denitrification consists of the sequential reduction of nitrate to nitrite, nitric oxide, nitrous oxide, and dinitrogen. Nitrous oxide escapes to the atmosphere, depending on copper availability and other environmental factors. Iron is also a key element because many proteins involved in denitrification contain iron-sulfur or heme centers. The NtrYX two-component regulatory system mediates the responses in a variety of metabolic processes, including denitrification. A quantitative proteomic analysis of a Paracoccus denitrificans NtrY mutant grown under denitrifying conditions revealed the induction of different TonB-dependent siderophore transporters and proteins related to iron homeostasis. This mutant showed lower intracellular iron content than the wild-type strain, and a reduced growth under denitrifying conditions in iron-limited media. Under iron-rich conditions, it releases higher concentrations of siderophores and displayes lower nitrous oxide reductase (NosZ) activity than the wild-type, thus leading to nitrous oxide emission. Bioinformatic and qRT-PCR analyses revealed that NtrYX is a global transcriptional regulatory system that responds to iron starvation and, in turn, controls expression of the iron-responsive regulators fur, rirA, and iscR, the denitrification regulators fnrP and narR, the nitric oxide-responsive regulator nnrS, and a wide set of genes, including the cd1-nitrite reductase NirS, nitrate/nitrite transporters and energy electron transport proteins.


Assuntos
Paracoccus denitrificans , Desnitrificação , Homeostase , Ferro/metabolismo , Nitratos/metabolismo , Óxido Nítrico/metabolismo , Nitritos/metabolismo , Óxido Nitroso/metabolismo , Paracoccus denitrificans/genética , Paracoccus denitrificans/metabolismo , Proteômica
6.
Opt Express ; 26(22): 28621-28633, 2018 Oct 29.
Artigo em Inglês | MEDLINE | ID: mdl-30470035

RESUMO

We describe a compact, all fiber, frequency stabilized diode laser system at 2051 nm using CO2 gas-filled Kagome Hollow Core Fiber (HCF), capable of tuning continuously over four transitions in 12C16O2: R(24), R(26), R(28), and R(30). This laser system has been designed for use in future space-based atmospheric monitoring using differential absorption lidar (DIAL). The fully spliced Kagome HCF gas cell is filled to 2 kPa CO2 partial pressure and we compare the observed CO2 lineshape features with those calculated using HITRAN, to quantify the properties of the CO2-filled fiber cell. In this first demonstration of Kagome HCF used in a fully sealed gas cell configuration for spectroscopy at 2 µm, we characterize the frequency stability of the locked system by beat frequency comparison against a reference laser. Results are presented for the laser locked to the center of the 12C16O2 R(30) transition, with frequency stability of ∼40 kHz or better at 1 s, and a frequency reproducibility at the 0.4-MHz level over a period of > 1 month. For DIAL applications, we also demonstrate two methods of stabilizing the laser frequency ~3 GHz from this line. Furthermore, no pressure degradation was observed during the ~15-month period in which frequency stability measurements were acquired.

7.
Appl Environ Microbiol ; 82(18): 5563-75, 2016 09 15.
Artigo em Inglês | MEDLINE | ID: mdl-27371588

RESUMO

Hydrogen sulfide produced by sulfate-reducing bacteria (SRB) in sewers causes odor problems and asset deterioration due to the sulfide-induced concrete corrosion. Free nitrous acid (FNA) was recently demonstrated as a promising antimicrobial agent to alleviate hydrogen sulfide production in sewers. However, details of the antimicrobial mechanisms of FNA are largely unknown. Here, we report the multiple-targeted antimicrobial effects of FNA on the SRB Desulfovibrio vulgaris Hildenborough by determining the growth, physiological, and gene expression responses to FNA exposure. The activities of growth, respiration, and ATP generation were inhibited when exposed to FNA. These changes were reflected in the transcript levels detected during exposure. The removal of FNA was evident by nitrite reduction that likely involved nitrite reductase and the poorly characterized hybrid cluster protein, and the genes coding for these proteins were highly expressed. During FNA exposure, lowered ribosome activity and protein production were detected. Additionally, conditions within the cells were more oxidizing, and there was evidence of oxidative stress. Based on an interpretation of the measured responses, we present a model depicting the antimicrobial effects of FNA on D. vulgaris These findings provide new insight for understanding the responses of D. vulgaris to FNA and will provide a foundation for optimal application of this antimicrobial agent for improved control of sewer corrosion and odor management.IMPORTANCE Hydrogen sulfide produced by SRB in sewers causes odor problems and results in serious deterioration of sewer assets that requires very costly and demanding rehabilitation. Currently, there is successful application of the antimicrobial agent free nitrous acid (FNA), the protonated form of nitrite, for the control of sulfide levels in sewers (G. Jiang et al., Water Res 47:4331-4339, 2013, http://dx.doi.org/10.1016/j.watres.2013.05.024). However, the details of the antimicrobial mechanisms of FNA are largely unknown. In this study, we identified the key responses (decreased anaerobic respiration, reducing FNA, combating oxidative stress, and shutting down protein synthesis) of Desulfovibrio vulgaris Hildenborough, a model sewer corrosion bacterium, to FNA exposure by examining the growth, physiological, and gene expression changes. These findings provide new insight and underpinning knowledge for understanding the responses of D. vulgaris to FNA exposure, thereby benefiting the practical application of FNA for improved control of sewer corrosion and odor.


Assuntos
Anti-Infecciosos/farmacologia , Desulfovibrio vulgaris/efeitos dos fármacos , Ácido Nitroso/farmacologia , Trifosfato de Adenosina/metabolismo , Desulfovibrio vulgaris/genética , Desulfovibrio vulgaris/crescimento & desenvolvimento , Desulfovibrio vulgaris/metabolismo , Transporte de Elétrons/efeitos dos fármacos , Metabolismo Energético/efeitos dos fármacos , Perfilação da Expressão Gênica , Biossíntese de Proteínas/efeitos dos fármacos , Ribossomos/metabolismo , Transcrição Gênica
8.
Sci Rep ; 5: 11677, 2015 Jul 01.
Artigo em Inglês | MEDLINE | ID: mdl-26126857

RESUMO

Extracellular microbe-mineral electron transfer is a major driving force for the oxidation of organic carbon in many subsurface environments. Extracellular multi-heme cytochromes of the Shewenella genus play a major role in this process but the mechanism of electron exchange at the interface between cytochrome and acceptor is widely debated. The 1.8 Å x-ray crystal structure of the decaheme MtrC revealed a highly conserved CX8C disulfide that, when substituted for AX8A, severely compromised the ability of S. oneidensis to grow under aerobic conditions. Reductive cleavage of the disulfide in the presence of flavin mononucleotide (FMN) resulted in the reversible formation of a stable flavocytochrome. Similar results were also observed with other decaheme cytochromes, OmcA, MtrF and UndA. The data suggest that these decaheme cytochromes can transition between highly reactive flavocytochromes or less reactive cytochromes, and that this transition is controlled by a redox active disulfide that responds to the presence of oxygen.


Assuntos
Proteínas de Bactérias/metabolismo , Flavinas/metabolismo , Minerais/metabolismo , Shewanella/metabolismo , Aerobiose , Motivos de Aminoácidos , Sequência de Aminoácidos , Anaerobiose , Proteínas de Bactérias/química , Cristalografia por Raios X , Citocromos/metabolismo , Dissulfetos/metabolismo , Transporte de Elétrons , Eletroforese em Gel de Poliacrilamida , Glutationa/metabolismo , Heme/metabolismo , Oxirredução , Filogenia , Alinhamento de Sequência , Shewanella/crescimento & desenvolvimento , Espectrometria de Fluorescência , Espectrofotometria Ultravioleta
9.
PLoS One ; 9(9): e108144, 2014.
Artigo em Inglês | MEDLINE | ID: mdl-25243844

RESUMO

The increase in atmospheric nitrous oxide (N2O), a potent greenhouse and ozone depleting gas, is of serious global concern. Soils are large contributors to this increase through microbial processes that are enhanced in agricultural land due to nitrogenous fertilizer applications. Denitrification, a respiratory process using nitrogen oxides as electron acceptors in the absence of oxygen, is the main source of N2O. The end product of denitrification is benign dinitrogen (N2) and understanding what regulates the shift in ratio of N2O and N2 emission is crucial for mitigation strategies. The role of organic carbon in controlling N2O reduction is poorly understood, and mostly based on application of glucose. Here we investigated how a range of carbon compounds (succinate, butyrate, malic acid, acetate, glucose, sucrose and cysteine) affect denitrifier N2/N2O production stoichiometry under laboratory conditions. The results show that a soil's capability in efficiently reducing N2O to N2 is C substrate dependent and most compounds tested were different in regards to this efficiency compared to glucose. We challenge the concept of using glucose as a model soil C compound in furthering our understanding of denitrification and specifically the efficiency in the N2O reductase enzyme. Organic acids, commonly exuded by roots, increased N2/N2O ratios compared to glucose, and therefore mitigated net N2O release and we suggest provides better insights into soil regulatory aspects of N2O reduction. The widespread use of glucose in soil laboratory studies could lead to misleading knowledge on the functioning of denitrification in soils with regards to N2O reduction.


Assuntos
Desnitrificação , Nitrogênio/análise , Óxido Nitroso/análise , Solo/química
10.
Biochem J ; 451(3): 389-94, 2013 May 01.
Artigo em Inglês | MEDLINE | ID: mdl-23421449

RESUMO

Bacterial NOR (nitric oxide reductase) is a major source of the powerful greenhouse gas N2O. NorBC from Paracoccus denitrificans is a heterodimeric multi-haem transmembrane complex. The active site, in NorB, comprises high-spin haem b3 in close proximity with non-haem iron, FeB. In oxidized NorBC, the active site is EPR-silent owing to exchange coupling between FeIII haem b3 and FeBIII (both S=5/2). On the basis of resonance Raman studies [Moënne-Loccoz, Richter, Huang, Wasser, Ghiladi, Karlin and de Vries (2000) J. Am. Chem. Soc. 122, 9344-9345], it has been assumed that the coupling is mediated by an oxo-bridge and subsequent studies have been interpreted on the basis of this model. In the present study we report a VFVT (variable-field variable-temperature) MCD (magnetic circular dichroism) study that determines an isotropic value of J=-1.7 cm-1 for the coupling. This is two orders of magnitude smaller than that encountered for oxo-bridged diferric systems, thus ruling out this configuration. Instead, it is proposed that weak coupling is mediated by a conserved glutamate residue.


Assuntos
Proteínas de Bactérias/química , Heme/química , Ferro/química , Oxirredutases/química , Paracoccus denitrificans/química , Proteínas de Bactérias/isolamento & purificação , Proteínas de Bactérias/metabolismo , Domínio Catalítico , Dicroísmo Circular , Espectroscopia de Ressonância de Spin Eletrônica , Ácido Glutâmico/química , Ácido Glutâmico/metabolismo , Heme/metabolismo , Ferro/metabolismo , Cinética , Fenômenos Magnéticos , Oxirredução , Oxirredutases/isolamento & purificação , Oxirredutases/metabolismo , Paracoccus denitrificans/enzimologia , Termodinâmica
11.
Opt Express ; 20(24): 27419-24, 2012 Nov 19.
Artigo em Inglês | MEDLINE | ID: mdl-23187599

RESUMO

We experimentally demonstrate phase regeneration of a 40-Gb/s differential phase shift keying (DPSK) signal in a 1.7-m long highly nonlinear lead silicate W-type fiber using a degenerate two-pump phase-sensitive amplifier (PSA). Results show an improvement in the Error Vector Magnitude (EVM) and a reduction of almost a factor of 2 in the phase noise of the signal after regeneration for various noise levels at the input.


Assuntos
Amplificadores Eletrônicos , Tecnologia de Fibra Óptica/instrumentação , Processamento de Sinais Assistido por Computador/instrumentação , Telecomunicações/instrumentação , Desenho de Equipamento
12.
Structure ; 20(7): 1275-84, 2012 Jul 03.
Artigo em Inglês | MEDLINE | ID: mdl-22682743

RESUMO

Members of the genus Shewanella translocate deca- or undeca-heme cytochromes to the external cell surface thus enabling respiration using extracellular minerals and polynuclear Fe(III) chelates. The high resolution structure of the first undeca-heme outer membrane cytochrome, UndA, reveals a crossed heme chain with four potential electron ingress/egress sites arranged within four domains. Sequence and structural alignment of UndA and the deca-heme MtrF reveals the extra heme of UndA is inserted between MtrF hemes 6 and 7. The remaining UndA hemes can be superposed over the heme chain of the decaheme MtrF, suggesting that a ten heme core is conserved between outer membrane cytochromes. The UndA structure has also been crystallographically resolved in complex with substrates, an Fe(III)-nitrilotriacetate dimer or an Fe(III)-citrate trimer. The structural resolution of these UndA-Fe(III)-chelate complexes provides a rationale for previous kinetic measurements on UndA and other outer membrane cytochromes.


Assuntos
Proteínas da Membrana Bacteriana Externa/química , Citocromos/química , Compostos Férricos/química , Heme/química , Quelantes de Ferro/química , Ácido Nitrilotriacético/análogos & derivados , Shewanella/química , Sequência de Aminoácidos , Proteínas da Membrana Bacteriana Externa/genética , Proteínas da Membrana Bacteriana Externa/metabolismo , Sítios de Ligação , Sequência Conservada , Cristalografia por Raios X , Citocromos/genética , Citocromos/metabolismo , Modelos Moleculares , Dados de Sequência Molecular , Ácido Nitrilotriacético/química , Plasmídeos , Ligação Proteica , Estrutura Secundária de Proteína , Alinhamento de Sequência , Homologia de Sequência de Aminoácidos , Shewanella/enzimologia , Shewanella/genética , Solubilidade , Transformação Bacteriana
13.
Antioxid Redox Signal ; 16(8): 819-52, 2012 Apr 15.
Artigo em Inglês | MEDLINE | ID: mdl-22098259

RESUMO

Under a shortage of oxygen, bacterial growth can be faced mainly by two ATP-generating mechanisms: (i) by synthesis of specific high-affinity terminal oxidases that allow bacteria to use traces of oxygen or (ii) by utilizing other substrates as final electron acceptors such as nitrate, which can be reduced to dinitrogen gas through denitrification or to ammonium. This bacterial respiratory shift from oxic to microoxic and anoxic conditions requires a regulatory strategy which ensures that cells can sense and respond to changes in oxygen tension and to the availability of other electron acceptors. Bacteria can sense oxygen by direct interaction of this molecule with a membrane protein receptor (e.g., FixL) or by interaction with a cytoplasmic transcriptional factor (e.g., Fnr). A third type of oxygen perception is based on sensing changes in redox state of molecules within the cell. Redox-responsive regulatory systems (e.g., ArcBA, RegBA/PrrBA, RoxSR, RegSR, ActSR, ResDE, and Rex) integrate the response to multiple signals (e.g., ubiquinone, menaquinone, redox active cysteine, electron transport to terminal oxidases, and NAD/NADH) and activate or repress target genes to coordinate the adaptation of bacterial respiration from oxic to anoxic conditions. Here, we provide a compilation of the current knowledge about proteins and regulatory networks involved in the redox control of the respiratory adaptation of different bacterial species to microxic and anoxic environments.


Assuntos
Adaptação Fisiológica , Bactérias/metabolismo , Fenômenos Fisiológicos Bacterianos , Oxigênio/metabolismo , Animais , Bactérias/enzimologia , Humanos , Redes e Vias Metabólicas , Nitratos/metabolismo , Oxirredução
14.
Proc Natl Acad Sci U S A ; 108(23): 9384-9, 2011 Jun 07.
Artigo em Inglês | MEDLINE | ID: mdl-21606337

RESUMO

Some bacterial species are able to utilize extracellular mineral forms of iron and manganese as respiratory electron acceptors. In Shewanella oneidensis this involves decaheme cytochromes that are located on the bacterial cell surface at the termini of trans-outer-membrane electron transfer conduits. The cell surface cytochromes can potentially play multiple roles in mediating electron transfer directly to insoluble electron sinks, catalyzing electron exchange with flavin electron shuttles or participating in extracellular intercytochrome electron exchange along "nanowire" appendages. We present a 3.2-Å crystal structure of one of these decaheme cytochromes, MtrF, that allows the spatial organization of the 10 hemes to be visualized for the first time. The hemes are organized across four domains in a unique crossed conformation, in which a staggered 65-Å octaheme chain transects the length of the protein and is bisected by a planar 45-Å tetraheme chain that connects two extended Greek key split ß-barrel domains. The structure provides molecular insight into how reduction of insoluble substrate (e.g., minerals), soluble substrates (e.g., flavins), and cytochrome redox partners might be possible in tandem at different termini of a trifurcated electron transport chain on the cell surface.


Assuntos
Proteínas da Membrana Bacteriana Externa/química , Grupo dos Citocromos c/química , Citocromos/química , Heme/química , Sequência de Aminoácidos , Proteínas da Membrana Bacteriana Externa/genética , Proteínas da Membrana Bacteriana Externa/metabolismo , Sítios de Ligação/genética , Cristalografia por Raios X , Cisteína/química , Cisteína/genética , Cisteína/metabolismo , Grupo dos Citocromos c/genética , Grupo dos Citocromos c/metabolismo , Citocromos/genética , Citocromos/metabolismo , Dissulfetos/química , Espectroscopia de Ressonância de Spin Eletrônica , Transporte de Elétrons , Mononucleotídeo de Flavina/química , Mononucleotídeo de Flavina/metabolismo , Mononucleotídeo de Flavina/farmacologia , Heme/metabolismo , Ferro/química , Ferro/metabolismo , Ferro/farmacologia , Modelos Moleculares , Dados de Sequência Molecular , Oxirredução/efeitos dos fármacos , Potenciometria , Ligação Proteica , Estrutura Terciária de Proteína , Shewanella/genética , Shewanella/metabolismo
15.
J Biol Chem ; 285(30): 22882-9, 2010 Jul 23.
Artigo em Inglês | MEDLINE | ID: mdl-20466730

RESUMO

The Ccm cytochrome c maturation System I catalyzes covalent attachment of heme to apocytochromes c in many bacterial species and some mitochondria. A covalent, but transient, bond between heme and a conserved histidine in CcmE along with an interaction between CcmH and the apocytochrome have been previously indicated as core aspects of the Ccm system. Here, we show that in the Ccm system from Desulfovibrio desulfuricans, no CcmH is required, and the holo-CcmE covalent bond occurs via a cysteine residue. These observations call for reconsideration of the accepted models of System I-mediated c-type cytochrome biogenesis.


Assuntos
Proteínas de Bactérias/genética , Citocromos c/biossíntese , Desulfovibrio desulfuricans/genética , Desulfovibrio desulfuricans/metabolismo , Deleção de Genes , Heme/metabolismo , Histidina/metabolismo , Sequência de Aminoácidos , Proteínas de Bactérias/química , Proteínas de Bactérias/metabolismo , Escherichia coli/genética , Genoma Bacteriano/genética , Modelos Moleculares , Dados de Sequência Molecular , Conformação Proteica , Solubilidade
16.
Opt Express ; 18(5): 4130-7, 2010 Mar 01.
Artigo em Inglês | MEDLINE | ID: mdl-20389426

RESUMO

We experimentally demonstrate a single-pumped, non-degenerate phase-sensitive parametric amplifier with a precise control of phase and amplitude of the in-going waves and investigate in detail its gain, attenuation and saturation properties in comparison with operation in phase insensitive amplifier (PIA) mode. We experimentally observe the variation of the gain and attenuation as a function of the relative phase, pump power and the signal-idler power ratio. The phase sensitive gain spectrum is studied over a 24 nm symmetrical bandwidth and we achieve a maximum phase sensitive amplification (PSA) gain of 33 dB. A departure from the theoretical maximum attenuation as the gain increases is observed and explained.

17.
Environ Microbiol ; 11(12): 3029-44, 2009 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-19650829

RESUMO

Proteins synthesized by the mixed microbial community of two sequencing batch reactors run for enhanced biological phosphorus removal (EBPR) during aerobic and anaerobic reactor phases were compared, using mass spectrometry-based proteomics and radiolabelling. Both sludges were dominated by polyphosphate-accumulating organisms belonging to Candidatis Accumulibacter and the majority of proteins identified matched closest to these bacteria. Enzymes from the Embden-Meyerhof-Parnas pathway were identified, suggesting this is the major glycolytic pathway for these Accumulibacter populations. Enhanced aerobic synthesis of glyoxylate cycle enzymes suggests this cycle is important during the aerobic phase of EBPR. In one sludge, several TCA cycle enzymes showed enhanced aerobic synthesis, suggesting this cycle is unimportant anaerobically. The second sludge showed enhanced synthesis of TCA cycle enzymes under anaerobic conditions, suggesting full or partial TCA cycle operation anaerobically. A phylogenetic analysis of Accumulibacter polyphosphate kinase genes from each sludge demonstrated different Accumulibacter populations dominated the two sludges. Thus, TCA cycle activity differences may be due to Accumulibacter strain differences. The major fatty acids present in Accumulibacter-dominated sludge include palmitic, hexadecenoic and cis-vaccenic acid and fatty acid content increased by approximately 20% during the anaerobic phase. We hypothesize that this is associated with increased anaerobic phospholipid membrane biosynthesis, to accommodate intracellular polyhydroxyalkanoate granules.


Assuntos
Proteínas de Bactérias/metabolismo , Betaproteobacteria/metabolismo , Reatores Biológicos/microbiologia , Fósforo/metabolismo , Proteoma/metabolismo , Proteômica/métodos , Aerobiose , Anaerobiose , Radioisótopos de Enxofre
18.
Electron. j. biotechnol ; 12(2): 4-5, Apr. 2009. ilus, tab
Artigo em Inglês | LILACS | ID: lil-551365

RESUMO

The effect of metal ions, ferric ion (Fe3+) and molybdenum ion (Mo6+) on the denitrification process of Paracoccus pantotrophus P16 grown under saline conditions was investigated. Results revealed that the dosages of added Fe3+ and Mo6+ significantly accelerated nitrate utilization and nitrite accumulation. Enzymatic studies revealed that the membrane-bound nitrate reductase and the periplasmic nitrite reductase had activities of 998 +/- 28 and 373 +/- 18 nmol (mg protein)-1 min-1, respectively after growing Paracoccus pantotrophus P16 in medium supplemented with 1.5 micron M Fe3+. If provided with 1.5 micron M Fe3+and 2.4 micron M Mo6+, the membrane-bound nitrate reductase activity increased to 6,223 +/- 502 nmol (mg protein)-1 min-1 and the periplasmic nitrite reductase was 344 +/- 20 nmol (mg protein)-1 min-1. The results indicated that an addition of Fe3+ and Mo6+ led to an overstimulation of nitrate reductase activity as compared with nitrite reductase activity. When glucose was supplied, the minimal ratio of carbon per nitrate (C/N) was 2.31 mg C/mg NO3--N with denitrification yield of 0.45 g NO3--N/g C. Addition of ethanol instead of glucose, the minimal ratio of C/N was 1.15 mg C/mg NO3--N with denitrification yield of 1.08 g NO3--N/g C.


Assuntos
Artemia/metabolismo , Molibdoferredoxina/metabolismo , Paracoccus pantotrophus , Paracoccus pantotrophus/enzimologia , Bioacumulação/análise , Desnitrificação
19.
Biochem Soc Trans ; 36(Pt 5): 1005-10, 2008 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-18793179

RESUMO

The periplasmic nitrite reductase system from Escherichia coli and the extracellular Fe(III) reductase system from Shewanella oneidensis contain multihaem c-type cytochromes as electron carriers and terminal reductases. The position and orientation of the haem cofactors in multihaem cytochromes from different bacteria often show significant conservation despite different arrangements of the polypeptide chain. We propose that the decahaem cytochromes of the iron reductase system MtrA, MtrC and OmcA comprise pentahaem 'modules' similar to the electron donor protein, NrfB, from E. coli. To demonstrate this, we have isolated and characterized the N-terminal pentahaem module of MtrA by preparing a truncated form containing five covalently attached haems. UV-visible spectroscopy indicated that all five haems were low-spin, consistent with the presence of bis-His ligand co-ordination as found in full-length MtrA.


Assuntos
Respiração Celular/fisiologia , Citocromos/química , Citocromos/metabolismo , Escherichia coli/fisiologia , Heme/química , Nitritos/metabolismo , Shewanella/fisiologia , Transportadores de Cassetes de Ligação de ATP/química , Transportadores de Cassetes de Ligação de ATP/genética , Transportadores de Cassetes de Ligação de ATP/metabolismo , Sequência de Aminoácidos , Proteínas de Bactérias/química , Proteínas de Bactérias/genética , Proteínas de Bactérias/metabolismo , Grupo dos Citocromos c/química , Grupo dos Citocromos c/genética , Grupo dos Citocromos c/metabolismo , Citocromos/genética , Transporte de Elétrons/fisiologia , Heme/genética , Heme/metabolismo , Modelos Moleculares , Dados de Sequência Molecular , Oxirredutases/química , Oxirredutases/genética , Oxirredutases/metabolismo , Estrutura Terciária de Proteína , Alinhamento de Sequência
20.
Appl Environ Microbiol ; 73(18): 5797-808, 2007 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-17675441

RESUMO

The interaction of proteins implicated in dissimilatory metal reduction by Shewanella oneidensis MR-1 (outer membrane [OM] proteins OmcA, MtrB, and MtrC; OM-associated protein MtrA; periplasmic protein CctA; and cytoplasmic membrane protein CymA) were characterized by protein purification, analytical ultracentrifugation, and cross-linking methods. Five of these proteins are heme proteins, OmcA (83 kDa), MtrC (75 kDa), MtrA (32 kDa), CctA (19 kDa), and CymA (21 kDa), and can be visualized after sodium dodecyl sulfate-polyacrylamide gel electrophoresis by heme staining. We show for the first time that MtrC, MtrA, and MtrB form a 198-kDa complex with a 1:1:1 stoichiometry. These proteins copurify through anion-exchange chromatography, and the purified complex has the ability to reduce multiple forms of Fe(III) and Mn(IV). Additionally, MtrA fractionates with the OM through sucrose density gradient ultracentrifugation, and MtrA comigrates with MtrB in native gels. Protein cross-linking of whole cells with 1% formaldehyde show new heme bands of 160, 151, 136, and 59 kDa. Using antibodies to detect each protein separately, heme proteins OmcA and MtrC were shown to cross-link, yielding the 160-kDa band. Consistent with copurification results, MtrB cross-links with MtrA, forming high-molecular-mass bands of approximately 151 and 136 kDa.


Assuntos
Proteínas da Membrana Bacteriana Externa/metabolismo , Compostos Férricos/metabolismo , Shewanella/metabolismo , Proteínas da Membrana Bacteriana Externa/química , Grupo dos Citocromos c/metabolismo , Heme , Família Multigênica , Oxirredução , Ligação Proteica , Mapeamento de Interação de Proteínas , Shewanella/enzimologia , Shewanella/genética
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